diff --git a/_data/data.yaml b/_data/data.yaml
index 5dbac09..fa2441c 100644
--- a/_data/data.yaml
+++ b/_data/data.yaml
@@ -115,6 +115,34 @@
   resources:
   - title: .nan
     url: .nan
+- biocontainers: AGAT
+  biotools: AGAT
+  bunya: ''
+  description: 'Another Gff Analysis Toolkit (AGAT)
+
+    Suite of tools to handle gene annotations in any GTF/GFF format.'
+  edam-inputs: []
+  edam-operations:
+  - Data handling
+  - Genome annotation
+  edam-outputs: []
+  edam-topics:
+  - Genomics
+  galaxy: ''
+  homepage: https://github.com/NBISweden/AGAT
+  id: agat
+  license: GPL-3.0
+  name: AGAT
+  nci-gadi: ''
+  nci-if89:
+  - 1.4.0
+  pawsey: ''
+  publications:
+  - title: 10.5281/zenodo.3552717
+    url: https://doi.org/10.5281/zenodo.3552717
+  resources:
+  - title: .nan
+    url: .nan
 - biocontainers: amber
   biotools: amber
   bunya: ''
@@ -2236,6 +2264,36 @@
   resources:
   - title: .nan
     url: .nan
+- biocontainers: bracken
+  biotools: bracken
+  bunya: ''
+  description: Statistical method that computes the abundance of species in DNA sequences
+    from a metagenomics sample.
+  edam-inputs: []
+  edam-operations:
+  - Statistical calculation
+  edam-outputs: []
+  edam-topics:
+  - Metagenomics
+  - Microbial ecology
+  galaxy:
+  - description: 'Bracken: to re-estimate abundance at a taxonomic level from kraken
+      output'
+    title: Bracken 2.9+galaxy0
+    url: https://usegalaxy.org.au/root?tool_id=toolshed.g2.bx.psu.edu%2Frepos%2Fiuc%2Fbracken%2Fest_abundance%2F2.9%2Bgalaxy0
+  homepage: https://ccb.jhu.edu/software/bracken/
+  id: bracken
+  license: GPL-3.0
+  name: Bracken
+  nci-gadi: ''
+  nci-if89: ''
+  pawsey: ''
+  publications:
+  - title: 'Bracken: Estimating species abundance in metagenomics data'
+    url: https://doi.org/10.7717/peerj-cs.104
+  resources:
+  - title: .nan
+    url: .nan
 - biocontainers: braker1
   biotools: braker1
   bunya:
@@ -3799,7 +3857,7 @@
   homepage: ''
   id: compose_text_param
   license: ''
-  name: compose_text_param
+  name: Compose text parameter value
   nci-gadi: ''
   nci-if89: ''
   pawsey: ''
@@ -3930,7 +3988,7 @@
   homepage: https://github.com/NordicESMhub/ctsm/tree/fates_emerald_api
   id: ctsm_fates
   license: ''
-  name: ctsm_fates
+  name: CTSM/FATES-EMERALD
   nci-gadi: ''
   nci-if89: ''
   pawsey: ''
@@ -5843,7 +5901,7 @@
   homepage: ''
   id: ethercalc
   license: ''
-  name: ethercalc
+  name: EtherCalc
   nci-gadi: ''
   nci-if89: ''
   pawsey: ''
@@ -6494,6 +6552,35 @@
   resources:
   - title: .nan
     url: .nan
+- biocontainers: feelnc
+  biotools: feelnc
+  bunya: ''
+  description: A tool to annotate long non-coding RNAs from RNA-seq assembled transcripts.
+  edam-inputs: []
+  edam-operations:
+  - Annotation
+  edam-outputs: []
+  edam-topics:
+  - RNA-seq
+  - Functional, regulatory and non-coding RNA
+  galaxy:
+  - description: 'FEELnc: FlExible Extraction of LncRNA'
+    title: FEELnc 0.2.1+galaxy0
+    url: https://usegalaxy.org.au/root?tool_id=toolshed.g2.bx.psu.edu%2Frepos%2Fiuc%2Ffeelnc%2Ffeelnc%2F0.2.1%2Bgalaxy0
+  homepage: https://github.com/tderrien/FEELnc
+  id: feelnc
+  license: GPL-3.0
+  name: FEELnc
+  nci-gadi: ''
+  nci-if89: ''
+  pawsey: ''
+  publications:
+  - title: 'FEELnc: A tool for long non-coding RNA annotation and its application
+      to the dog transcriptome'
+    url: https://doi.org/10.1093/nar/gkw1306
+  resources:
+  - title: .nan
+    url: .nan
 - biocontainers: ''
   biotools: ''
   bunya:
@@ -6515,6 +6602,54 @@
   resources:
   - title: .nan
     url: .nan
+- biocontainers: featurecounts
+  biotools: featurecounts
+  bunya: ''
+  description: featureCounts is a very efficient read quantifier. It can be used to
+    summarize RNA-seq reads and gDNA-seq reads to a variety of genomic features such
+    as genes, exons, promoters, gene bodies and genomic bins. It is included in the
+    Bioconductor Rsubread package and also in the SourceForge Subread package.
+  edam-inputs:
+  - formats:
+    - GFF
+    term: GFF
+  - formats:
+    - GTF
+    term: GTF
+  - formats:
+    - BAM
+    term: BAM
+  - formats:
+    - SAM
+    term: SAM
+  edam-operations:
+  - Read summarisation
+  - RNA-Seq quantification
+  edam-outputs:
+  - formats:
+    - DSV
+    term: DSV
+  edam-topics:
+  - RNA-Seq
+  galaxy:
+  - description: 'featureCounts: Measure gene expression in RNA-Seq experiments from
+      SAM or BAM files'
+    title: featureCounts 2.0.3+galaxy2
+    url: https://usegalaxy.org.au/root?tool_id=toolshed.g2.bx.psu.edu%2Frepos%2Fiuc%2Ffeaturecounts%2Ffeaturecounts%2F2.0.3%2Bgalaxy2
+  homepage: http://bioconductor.org/packages/release/bioc/html/Rsubread.html
+  id: featurecounts
+  license: GPL-3.0
+  name: FeatureCounts
+  nci-gadi: ''
+  nci-if89: ''
+  pawsey: ''
+  publications:
+  - title: 'FeatureCounts: An efficient general purpose program for assigning sequence
+      reads to genomic features'
+    url: http://www.ncbi.nlm.nih.gov/pubmed/24227677
+  resources:
+  - title: .nan
+    url: .nan
 - biocontainers: fgenesh
   biotools: fgenesh
   bunya: ''
@@ -6588,7 +6723,7 @@
   homepage: ''
   id: filter_transcripts_via_tracking
   license: ''
-  name: filter_transcripts_via_tracking
+  name: Filter Combined Transcripts
   nci-gadi: ''
   nci-if89: ''
   pawsey: ''
@@ -7155,190 +7290,190 @@
   - description: 'LAV to BED: Converts a LAV formatted file to BED format'
     title: LAV to BED 1.0.0
     url: https://usegalaxy.org.au/root?tool_id=lav_to_bed1
-  - description: 'Convert BAM to coordinate-sorted BAM: '
-    title: Convert BAM to coordinate-sorted BAM 1.0.1
-    url: https://usegalaxy.org.au/root?tool_id=CONVERTER_bam_to_coodinate_sorted_bam
-  - description: 'Convert CML to SMILES: '
-    title: Convert CML to SMILES 2.4.1
-    url: https://usegalaxy.org.au/root?tool_id=CONVERTER_cml_to_smiles
-  - description: 'OpenBabel converter for molecular formats: '
-    title: OpenBabel converter for molecular formats 2.4.1
-    url: https://usegalaxy.org.au/root?tool_id=CONVERTER_molecules
-  - description: 'Convert compressed file to uncompressed.: '
-    title: Convert compressed file to uncompressed. 1.0.0
-    url: https://usegalaxy.org.au/root?tool_id=CONVERTER_gz_to_uncompressed
   - description: 'Convert plink pbed to ld reduced format: '
     title: Convert plink pbed to ld reduced format 0.02
     url: https://usegalaxy.org.au/root?tool_id=pbed2ldindepconvert
-  - description: 'Convert Interval to BGZIP: '
-    title: Convert Interval to BGZIP 1.0.3
-    url: https://usegalaxy.org.au/root?tool_id=CONVERTER_interval_to_bgzip_0
-  - description: 'Convert compressed and uncompressed BCF files: '
-    title: Convert compressed and uncompressed BCF files 0.0.1
-    url: https://usegalaxy.org.au/root?tool_id=CONVERTER_bcf_uncompressed_to_bcf
-  - description: 'Convert uncompressed file to compressed: '
-    title: Convert uncompressed file to compressed 1.16+galaxy0
-    url: https://usegalaxy.org.au/root?tool_id=CONVERTER_uncompressed_to_gz
-  - description: 'Convert tar to directory: '
-    title: Convert tar to directory 1.0.1
-    url: https://usegalaxy.org.au/root?tool_id=CONVERTER_tar_to_directory
-  - description: 'Convert FASTA to len file: '
-    title: Convert FASTA to len file 1.0.1
-    url: https://usegalaxy.org.au/root?tool_id=CONVERTER_fasta_to_len
-  - description: 'Convert Genomic Intervals To BED: '
-    title: Convert Genomic Intervals To BED 1.0.0
-    url: https://usegalaxy.org.au/root?tool_id=CONVERTER_interval_to_bed_0
-  - description: 'Convert FASTQ files to seek locations: '
-    title: Convert FASTQ files to seek locations 1.0.1
-    url: https://usegalaxy.org.au/root?tool_id=CONVERTER_fastq_to_fqtoc0
+  - description: 'Convert Biom datasets: '
+    title: Convert Biom datasets 2.1.5
+    url: https://usegalaxy.org.au/root?tool_id=CONVERTER_biom
+  - description: 'OpenBabel converter for molecular formats: '
+    title: OpenBabel converter for molecular formats 2.4.1
+    url: https://usegalaxy.org.au/root?tool_id=CONVERTER_molecules
+  - description: 'Convert BedGraph to BigWig: '
+    title: Convert BedGraph to BigWig 1.0.1
+    url: https://usegalaxy.org.au/root?tool_id=CONVERTER_bedgraph_to_bigwig
+  - description: 'Convert Interval to tabix: '
+    title: Convert Interval to tabix 1.0.2
+    url: https://usegalaxy.org.au/root?tool_id=CONVERTER_interval_to_tabix_0
+  - description: 'Convert Genomic Intervals To Strict BED: '
+    title: Convert Genomic Intervals To Strict BED 1.0.1
+    url: https://usegalaxy.org.au/root?tool_id=CONVERTER_interval_to_bedstrict_0
+  - description: 'Convert CRAM to BAM: '
+    title: Convert CRAM to BAM 1.0.2
+    url: https://usegalaxy.org.au/root?tool_id=CONVERTER_cram_to_bam_0
   - description: 'Convert SMILES to MOL: '
     title: Convert SMILES to MOL 2.4.1
     url: https://usegalaxy.org.au/root?tool_id=CONVERTER_SMILES_to_MOL
-  - description: 'Convert Genomic Intervals To Strict BED12: '
-    title: Convert Genomic Intervals To Strict BED12 1.0.0
-    url: https://usegalaxy.org.au/root?tool_id=CONVERTER_interval_to_bed12_0
-  - description: 'Convert InChI to MOL: '
-    title: Convert InChI to MOL 2.4.1
-    url: https://usegalaxy.org.au/root?tool_id=CONVERTER_inchi_to_mol
-  - description: 'Convert Ref taxonomy to Seq Taxonomy: converts 2 or 3 column sequence
-      taxonomy file to a 2 column mothur taxonomy_outline format'
-    title: Convert Ref taxonomy to Seq Taxonomy 1.0.1
-    url: https://usegalaxy.org.au/root?tool_id=CONVERTER_ref_to_seq_taxomony
-  - description: 'Convert BAM to queryname-sorted BAM: '
-    title: Convert BAM to queryname-sorted BAM 1.0.1
-    url: https://usegalaxy.org.au/root?tool_id=CONVERTER_bam_to_qname_sorted_bam
   - description: 'Convert BigWig to Wiggle: Convert bigWig to wig'
     title: Convert BigWig to Wiggle 377+galaxy0
     url: https://usegalaxy.org.au/root?tool_id=bigwigtowig
   - description: 'Convert FASTA to Bowtie base space Index: '
     title: Convert FASTA to Bowtie base space Index 1.3.1
     url: https://usegalaxy.org.au/root?tool_id=CONVERTER_fasta_to_bowtie_base_index
-  - description: 'Convert Interval to tabix: '
-    title: Convert Interval to tabix 1.0.2
-    url: https://usegalaxy.org.au/root?tool_id=CONVERTER_interval_to_tabix_0
-  - description: 'Convert tabular to CSV: '
-    title: Convert tabular to CSV 1.0.0
-    url: https://usegalaxy.org.au/root?tool_id=tabular_to_csv
+  - description: 'Convert FASTQ files to seek locations: '
+    title: Convert FASTQ files to seek locations 1.0.1
+    url: https://usegalaxy.org.au/root?tool_id=CONVERTER_fastq_to_fqtoc0
   - description: 'Convert FASTA to fai file: '
     title: Convert FASTA to fai file 1.0.1
     url: https://usegalaxy.org.au/root?tool_id=CONVERTER_fasta_to_fai
-  - description: 'Convert XTC, DCD, and TRR: '
-    title: Convert XTC, DCD, and TRR 1.0.0
-    url: https://usegalaxy.org.au/root?tool_id=CONVERTER_mdconvert
-  - description: 'Convert Wiggle to Interval: '
-    title: Convert Wiggle to Interval 1.0.1
-    url: https://usegalaxy.org.au/root?tool_id=CONVERTER_wiggle_to_interval_0
-  - description: 'Convert compressed file to uncompressed.: '
-    title: Convert compressed file to uncompressed. 1.0.1
-    url: https://usegalaxy.org.au/root?tool_id=CONVERTER_bz2_to_uncompressed
+  - description: 'Convert Genomic Intervals To Coverage: '
+    title: Convert Genomic Intervals To Coverage 1.0.1
+    url: https://usegalaxy.org.au/root?tool_id=CONVERTER_interval_to_bigwig_0
+  - description: 'Convert PDB to GRO: '
+    title: Convert PDB to GRO 1.0.0
+    url: https://usegalaxy.org.au/root?tool_id=CONVERTER_Pdb_to_Gro_0
+  - description: 'Convert BAM to queryname-sorted BAM: '
+    title: Convert BAM to queryname-sorted BAM 1.0.1
+    url: https://usegalaxy.org.au/root?tool_id=CONVERTER_bam_to_qname_sorted_bam
+  - description: 'Convert FASTA to Tabular: '
+    title: Convert FASTA to Tabular 1.0.1
+    url: https://usegalaxy.org.au/root?tool_id=CONVERTER_fasta_to_tabular
+  - description: 'Convert CML to SMILES: '
+    title: Convert CML to SMILES 2.4.1
+    url: https://usegalaxy.org.au/root?tool_id=CONVERTER_cml_to_smiles
+  - description: 'Convert Bam to Bai: '
+    title: Convert Bam to Bai 1.0.1
+    url: https://usegalaxy.org.au/root?tool_id=CONVERTER_Bam_Bai_0
+  - description: 'Convert tabular to CSV: '
+    title: Convert tabular to CSV 1.0.0
+    url: https://usegalaxy.org.au/root?tool_id=tabular_to_csv
+  - description: 'Convert lped to plink pbed: '
+    title: Convert lped to plink pbed 0.02
+    url: https://usegalaxy.org.au/root?tool_id=lped2pbedconvert
+  - description: 'Convert BED to Feature Location Index: '
+    title: Convert BED to Feature Location Index 1.0.0
+    url: https://usegalaxy.org.au/root?tool_id=CONVERTER_bed_to_fli_0
   - description: 'Convert GFF to Interval Index: '
     title: Convert GFF to Interval Index 1.0.1
     url: https://usegalaxy.org.au/root?tool_id=CONVERTER_gff_to_interval_index_0
-  - description: 'Convert BGZ VCF to tabix: '
-    title: Convert BGZ VCF to tabix 1.0.2
-    url: https://usegalaxy.org.au/root?tool_id=CONVERTER_vcf_bgzip_to_tabix_0
-  - description: 'Convert plink pbed to linkage lped: '
-    title: Convert plink pbed to linkage lped 0.02
-    url: https://usegalaxy.org.au/root?tool_id=pbed2lpedconvert
+  - description: 'Convert GFF to Feature Location Index: '
+    title: Convert GFF to Feature Location Index 1.0.0
+    url: https://usegalaxy.org.au/root?tool_id=CONVERTER_gff_to_fli_0
+  - description: 'Convert Interval to BGZIP: '
+    title: Convert Interval to BGZIP 1.0.3
+    url: https://usegalaxy.org.au/root?tool_id=CONVERTER_interval_to_bgzip_0
+  - description: 'Convert MOL2 to MOL: '
+    title: Convert MOL2 to MOL 2.4.1
+    url: https://usegalaxy.org.au/root?tool_id=CONVERTER_mol2_to_mol
+  - description: 'Convert Genomic Intervals To Strict BED12: '
+    title: Convert Genomic Intervals To Strict BED12 1.0.0
+    url: https://usegalaxy.org.au/root?tool_id=CONVERTER_interval_to_bed12_0
+  - description: 'Convert MAF to Genomic Intervals: '
+    title: Convert MAF to Genomic Intervals 1.0.3
+    url: https://usegalaxy.org.au/root?tool_id=CONVERTER_maf_to_interval_0
+  - description: 'Convert BAM to coordinate-sorted BAM: '
+    title: Convert BAM to coordinate-sorted BAM 1.0.1
+    url: https://usegalaxy.org.au/root?tool_id=CONVERTER_bam_to_coodinate_sorted_bam
+  - description: 'Convert InChI to MOL: '
+    title: Convert InChI to MOL 2.4.1
+    url: https://usegalaxy.org.au/root?tool_id=CONVERTER_inchi_to_mol
+  - description: 'Convert FASTA to len file: '
+    title: Convert FASTA to len file 1.0.1
+    url: https://usegalaxy.org.au/root?tool_id=CONVERTER_fasta_to_len
+  - description: 'Convert SAM to BAM without sorting: '
+    title: Convert SAM to BAM without sorting 1.0.1
+    url: https://usegalaxy.org.au/root?tool_id=CONVERTER_sam_to_unsorted_bam
+  - description: 'Convert compressed file to uncompressed.: '
+    title: Convert compressed file to uncompressed. 1.0.1
+    url: https://usegalaxy.org.au/root?tool_id=CONVERTER_bz2_to_uncompressed
+  - description: 'Convert lped to fped: '
+    title: Convert lped to fped 0.02
+    url: https://usegalaxy.org.au/root?tool_id=lped2fpedconvert
   - description: 'Convert neostore.zip files to neostore: '
     title: Convert neostore.zip files to neostore 1.0.0
     url: https://usegalaxy.org.au/root?tool_id=CONVERTER_neostorezip_to_neostore
   - description: 'Convert BED, GFF, or VCF to BigWig: '
     title: Convert BED, GFF, or VCF to BigWig 1.0.1
     url: https://usegalaxy.org.au/root?tool_id=CONVERTER_bed_gff_or_vcf_to_bigwig_0
-  - description: 'Convert FASTA to Bowtie color space Index: '
-    title: Convert FASTA to Bowtie color space Index 1.2.3
-    url: https://usegalaxy.org.au/root?tool_id=CONVERTER_fasta_to_bowtie_color_index
-  - description: 'Convert MAF to Fasta: '
-    title: Convert MAF to Fasta 1.0.2
-    url: https://usegalaxy.org.au/root?tool_id=CONVERTER_maf_to_fasta_0
+  - description: 'Convert uncompressed file to compressed: '
+    title: Convert uncompressed file to compressed 1.16+galaxy0
+    url: https://usegalaxy.org.au/root?tool_id=CONVERTER_uncompressed_to_gz
+  - description: 'Convert GFF to BED: '
+    title: Convert GFF to BED 1.0.1
+    url: https://usegalaxy.org.au/root?tool_id=CONVERTER_gff_to_bed_0
+  - description: 'Convert plink pbed to linkage lped: '
+    title: Convert plink pbed to linkage lped 0.02
+    url: https://usegalaxy.org.au/root?tool_id=pbed2lpedconvert
+  - description: 'Convert XTC, DCD, and TRR: '
+    title: Convert XTC, DCD, and TRR 1.0.0
+    url: https://usegalaxy.org.au/root?tool_id=CONVERTER_mdconvert
   - description: 'Convert BAM to BigWig: '
     title: Convert BAM to BigWig 1.0.2
     url: https://usegalaxy.org.au/root?tool_id=CONVERTER_bam_to_bigwig_0
-  - description: 'Convert SAM to BigWig: '
-    title: Convert SAM to BigWig 1.0.3
-    url: https://usegalaxy.org.au/root?tool_id=CONVERTER_sam_to_bigwig_0
   - description: 'Convert Genomic Intervals To Strict BED6: '
     title: Convert Genomic Intervals To Strict BED6 1.0.1
     url: https://usegalaxy.org.au/root?tool_id=CONVERTER_interval_to_bed6_0
-  - description: 'Convert GFF to BED: '
-    title: Convert GFF to BED 1.0.1
-    url: https://usegalaxy.org.au/root?tool_id=CONVERTER_gff_to_bed_0
-  - description: 'Convert CRAM to BAM: '
-    title: Convert CRAM to BAM 1.0.2
-    url: https://usegalaxy.org.au/root?tool_id=CONVERTER_cram_to_bam_0
-  - description: 'Convert GFF to Feature Location Index: '
-    title: Convert GFF to Feature Location Index 1.0.0
-    url: https://usegalaxy.org.au/root?tool_id=CONVERTER_gff_to_fli_0
-  - description: 'SMILES to SMILES: '
-    title: SMILES to SMILES 2.4.1
-    url: https://usegalaxy.org.au/root?tool_id=CONVERTER_smiles_to_smiles
-  - description: 'Convert FASTA to 2bit: '
-    title: Convert FASTA to 2bit 1.0.1
-    url: https://usegalaxy.org.au/root?tool_id=CONVERTER_fasta_to_2bit
-  - description: 'Convert BED to Feature Location Index: '
-    title: Convert BED to Feature Location Index 1.0.0
-    url: https://usegalaxy.org.au/root?tool_id=CONVERTER_bed_to_fli_0
-  - description: 'Convert Genomic Intervals To Strict BED: '
-    title: Convert Genomic Intervals To Strict BED 1.0.1
-    url: https://usegalaxy.org.au/root?tool_id=CONVERTER_interval_to_bedstrict_0
-  - description: 'Convert CSV to tabular: '
-    title: Convert CSV to tabular 1.0.0
-    url: https://usegalaxy.org.au/root?tool_id=csv_to_tabular
-  - description: 'Convert Parquet to csv: '
-    title: Convert Parquet to csv 1.0.0
-    url: https://usegalaxy.org.au/root?tool_id=CONVERTER_parquet_to_csv
-  - description: 'Convert PDB to GRO: '
-    title: Convert PDB to GRO 1.0.0
-    url: https://usegalaxy.org.au/root?tool_id=CONVERTER_Pdb_to_Gro_0
-  - description: 'Convert Bam to Bai: '
-    title: Convert Bam to Bai 1.0.1
-    url: https://usegalaxy.org.au/root?tool_id=CONVERTER_Bam_Bai_0
-  - description: 'Convert Biom datasets: '
-    title: Convert Biom datasets 2.1.5
-    url: https://usegalaxy.org.au/root?tool_id=CONVERTER_biom
-  - description: 'Convert tabular to dbnsfp: '
-    title: Convert tabular to dbnsfp 1.0.2
-    url: https://usegalaxy.org.au/root?tool_id=tabular_to_dbnsfp
-  - description: 'Convert BED to GFF: '
-    title: Convert BED to GFF 2.0.1
-    url: https://usegalaxy.org.au/root?tool_id=CONVERTER_bed_to_gff_0
-  - description: 'Convert BedGraph to BigWig: '
-    title: Convert BedGraph to BigWig 1.0.1
-    url: https://usegalaxy.org.au/root?tool_id=CONVERTER_bedgraph_to_bigwig
-  - description: 'Convert Genomic Intervals To Coverage: '
-    title: Convert Genomic Intervals To Coverage 1.0.1
-    url: https://usegalaxy.org.au/root?tool_id=CONVERTER_interval_to_bigwig_0
-  - description: 'Convert lped to fped: '
-    title: Convert lped to fped 0.02
-    url: https://usegalaxy.org.au/root?tool_id=lped2fpedconvert
-  - description: 'Convert SAM to BAM without sorting: '
-    title: Convert SAM to BAM without sorting 1.0.1
-    url: https://usegalaxy.org.au/root?tool_id=CONVERTER_sam_to_unsorted_bam
-  - description: 'Convert MAF to Genomic Intervals: '
-    title: Convert MAF to Genomic Intervals 1.0.3
-    url: https://usegalaxy.org.au/root?tool_id=CONVERTER_maf_to_interval_0
-  - description: 'Convert MOL2 to MOL: '
-    title: Convert MOL2 to MOL 2.4.1
-    url: https://usegalaxy.org.au/root?tool_id=CONVERTER_mol2_to_mol
-  - description: 'Convert Picard Interval List to BED6: converter'
-    title: Convert Picard Interval List to BED6 1.0.1
-    url: https://usegalaxy.org.au/root?tool_id=CONVERTER_picard_interval_list_to_bed6
-  - description: 'Convert Wiggle to BigWig: '
-    title: Convert Wiggle to BigWig 1.0.1
-    url: https://usegalaxy.org.au/root?tool_id=CONVERTER_wig_to_bigwig
+  - description: 'Convert BGZ VCF to tabix: '
+    title: Convert BGZ VCF to tabix 1.0.2
+    url: https://usegalaxy.org.au/root?tool_id=CONVERTER_vcf_bgzip_to_tabix_0
+  - description: 'Convert CSV to tabular: '
+    title: Convert CSV to tabular 1.0.0
+    url: https://usegalaxy.org.au/root?tool_id=csv_to_tabular
+  - description: 'Convert Wiggle to Interval: '
+    title: Convert Wiggle to Interval 1.0.1
+    url: https://usegalaxy.org.au/root?tool_id=CONVERTER_wiggle_to_interval_0
+  - description: 'Convert Parquet to csv: '
+    title: Convert Parquet to csv 1.0.0
+    url: https://usegalaxy.org.au/root?tool_id=CONVERTER_parquet_to_csv
+  - description: 'Convert Ref taxonomy to Seq Taxonomy: converts 2 or 3 column sequence
+      taxonomy file to a 2 column mothur taxonomy_outline format'
+    title: Convert Ref taxonomy to Seq Taxonomy 1.0.1
+    url: https://usegalaxy.org.au/root?tool_id=CONVERTER_ref_to_seq_taxomony
+  - description: 'Convert FASTA to 2bit: '
+    title: Convert FASTA to 2bit 1.0.1
+    url: https://usegalaxy.org.au/root?tool_id=CONVERTER_fasta_to_2bit
+  - description: 'Convert tar to directory: '
+    title: Convert tar to directory 1.0.1
+    url: https://usegalaxy.org.au/root?tool_id=CONVERTER_tar_to_directory
+  - description: 'Convert SAM to BigWig: '
+    title: Convert SAM to BigWig 1.0.3
+    url: https://usegalaxy.org.au/root?tool_id=CONVERTER_sam_to_bigwig_0
   - description: 'Convert GRO to PDB: '
     title: Convert GRO to PDB 1.0.0
     url: https://usegalaxy.org.au/root?tool_id=CONVERTER_Gro_to_Pdb_0
+  - description: 'Convert compressed file to uncompressed.: '
+    title: Convert compressed file to uncompressed. 1.0.0
+    url: https://usegalaxy.org.au/root?tool_id=CONVERTER_gz_to_uncompressed
+  - description: 'Convert tabular to dbnsfp: '
+    title: Convert tabular to dbnsfp 1.0.2
+    url: https://usegalaxy.org.au/root?tool_id=tabular_to_dbnsfp
   - description: 'Convert Len file to Linecount: '
     title: Convert Len file to Linecount 1.0.1
     url: https://usegalaxy.org.au/root?tool_id=CONVERTER_len_to_linecount
-  - description: 'Convert FASTA to Tabular: '
-    title: Convert FASTA to Tabular 1.0.1
-    url: https://usegalaxy.org.au/root?tool_id=CONVERTER_fasta_to_tabular
-  - description: 'Convert lped to plink pbed: '
-    title: Convert lped to plink pbed 0.02
-    url: https://usegalaxy.org.au/root?tool_id=lped2pbedconvert
+  - description: 'Convert Genomic Intervals To BED: '
+    title: Convert Genomic Intervals To BED 1.0.0
+    url: https://usegalaxy.org.au/root?tool_id=CONVERTER_interval_to_bed_0
+  - description: 'Convert Wiggle to BigWig: '
+    title: Convert Wiggle to BigWig 1.0.1
+    url: https://usegalaxy.org.au/root?tool_id=CONVERTER_wig_to_bigwig
+  - description: 'Convert Picard Interval List to BED6: converter'
+    title: Convert Picard Interval List to BED6 1.0.1
+    url: https://usegalaxy.org.au/root?tool_id=CONVERTER_picard_interval_list_to_bed6
+  - description: 'Convert MAF to Fasta: '
+    title: Convert MAF to Fasta 1.0.2
+    url: https://usegalaxy.org.au/root?tool_id=CONVERTER_maf_to_fasta_0
+  - description: 'Convert compressed and uncompressed BCF files: '
+    title: Convert compressed and uncompressed BCF files 0.0.1
+    url: https://usegalaxy.org.au/root?tool_id=CONVERTER_bcf_uncompressed_to_bcf
+  - description: 'Convert FASTA to Bowtie color space Index: '
+    title: Convert FASTA to Bowtie color space Index 1.2.3
+    url: https://usegalaxy.org.au/root?tool_id=CONVERTER_fasta_to_bowtie_color_index
+  - description: 'Convert BED to GFF: '
+    title: Convert BED to GFF 2.0.1
+    url: https://usegalaxy.org.au/root?tool_id=CONVERTER_bed_to_gff_0
+  - description: 'SMILES to SMILES: '
+    title: SMILES to SMILES 2.4.1
+    url: https://usegalaxy.org.au/root?tool_id=CONVERTER_smiles_to_smiles
   homepage: ''
   id: Galaxy CONVERTER
   license: ''
@@ -7383,6 +7518,13 @@
   - description: 'modENCODE worm: server'
     title: modENCODE worm 1.0.1
     url: https://usegalaxy.org.au//tool_runner/data_source_redirect?tool_id=modENCODEworm
+  - description: 'metabolicMine: server'
+    title: metabolicMine 1.0.0
+    url: https://usegalaxy.org.au//tool_runner/data_source_redirect?tool_id=metabolicmine
+  - description: 'EBI SCXA Data Retrieval: Retrieves expression matrixes and metadata
+      from EBI Single Cell Expression Atlas (SCXA)'
+    title: EBI SCXA Data Retrieval v0.0.2+galaxy2
+    url: https://usegalaxy.org.au/root?tool_id=toolshed.g2.bx.psu.edu%2Frepos%2Febi-gxa%2Fretrieve_scxa%2Fretrieve_scxa%2Fv0.0.2%2Bgalaxy2
   homepage: ''
   id: galaxy_data_sources
   license: ''
@@ -7403,6 +7545,9 @@
   edam-outputs: ''
   edam-topics: ''
   galaxy:
+  - description: 'Filter sequences by ID: from a tabular file'
+    title: Filter sequences by ID 0.2.9
+    url: https://usegalaxy.org.au/root?tool_id=toolshed.g2.bx.psu.edu%2Frepos%2Fpeterjc%2Fseq_filter_by_id%2Fseq_filter_by_id%2F0.2.9
   - description: 'Filter FASTA: on the headers and/or the sequences'
     title: Filter FASTA 2.3
     url: https://usegalaxy.org.au/root?tool_id=toolshed.g2.bx.psu.edu%2Frepos%2Fgalaxyp%2Ffilter_by_fasta_ids%2Ffilter_by_fasta_ids%2F2.3
@@ -7459,6 +7604,16 @@
   - description: 'Histogram: of a numeric column'
     title: Histogram 1.0.4
     url: https://usegalaxy.org.au/root?tool_id=toolshed.g2.bx.psu.edu%2Frepos%2Fdevteam%2Fhistogram%2Fhistogram_rpy%2F1.0.4
+  - description: 'Plot confusion matrix, precision, recall and ROC and AUC curves:
+      of tabular data'
+    title: Plot confusion matrix, precision, recall and ROC and AUC curves 0.3
+    url: https://usegalaxy.org.au/root?tool_id=toolshed.g2.bx.psu.edu%2Frepos%2Fbgruening%2Fplotly_ml_performance_plots%2Fplotly_ml_performance_plots%2F0.3
+  - description: 'Parallel Coordinates Plot: of tabular data'
+    title: Parallel Coordinates Plot 0.2
+    url: https://usegalaxy.org.au/root?tool_id=toolshed.g2.bx.psu.edu%2Frepos%2Fbgruening%2Fplotly_parallel_coordinates_plot%2Fplotly_parallel_coordinates_plot%2F0.2
+  - description: 'Plot actual vs predicted curves and residual plots: of tabular data'
+    title: Plot actual vs predicted curves and residual plots 0.1
+    url: https://usegalaxy.org.au/root?tool_id=toolshed.g2.bx.psu.edu%2Frepos%2Fbgruening%2Fplotly_regression_performance_plots%2Fplotly_regression_performance_plots%2F0.1
   - description: 'proportional venn: from 2-3 sets'
     title: proportional venn 0.5
     url: https://usegalaxy.org.au/root?tool_id=toolshed.g2.bx.psu.edu%2Frepos%2Fidot%2Fprop_venn%2Fprop_venn%2F0.5
@@ -7613,6 +7768,9 @@
   edam-outputs: ''
   edam-topics: ''
   galaxy:
+  - description: 'Filter Tabular: '
+    title: Filter Tabular 3.3.1
+    url: https://usegalaxy.org.au/root?tool_id=toolshed.g2.bx.psu.edu%2Frepos%2Fiuc%2Ffilter_tabular%2Ffilter_tabular%2F3.3.1
   - description: 'Number lines: '
     title: Number lines 9.3+galaxy1
     url: https://usegalaxy.org.au/root?tool_id=toolshed.g2.bx.psu.edu%2Frepos%2Fbgruening%2Ftext_processing%2Fnl%2F9.3%2Bgalaxy1
@@ -7646,9 +7804,6 @@
   - description: 'cut_francais: keep or remove selected column'
     title: cut_francais 1.0
     url: https://usegalaxy.org.au/root?tool_id=toolshed.g2.bx.psu.edu%2Frepos%2Fr-lannes%2Fcut_include_exclude%2Fcut_fr%2F1.0
-  - description: 'Filter Tabular: '
-    title: Filter Tabular 3.3.0
-    url: https://usegalaxy.org.au/root?tool_id=toolshed.g2.bx.psu.edu%2Frepos%2Fiuc%2Ffilter_tabular%2Ffilter_tabular%2F3.3.0
   - description: 'Join two files: on column allowing a small difference'
     title: Join two files 1.0.1
     url: https://usegalaxy.org.au/root?tool_id=toolshed.g2.bx.psu.edu%2Frepos%2Fbgruening%2Fjoin_files_on_column_fuzzy%2Fjoin_files_on_column_fuzzy%2F1.0.1
@@ -7709,6 +7864,13 @@
   - description: 'Secure Hash / Message Digest: on a dataset'
     title: Secure Hash / Message Digest 0.0.2
     url: https://usegalaxy.org.au/root?tool_id=secure_hash_message_digest
+  - description: 'Add line to file: writes a line of text at the begining or end of
+      a text file.'
+    title: Add line to file 0.1.0
+    url: https://usegalaxy.org.au/root?tool_id=toolshed.g2.bx.psu.edu%2Frepos%2Fbgruening%2Fadd_line_to_file%2Fadd_line_to_file%2F0.1.0
+  - description: 'Remove columns: by heading'
+    title: Remove columns 1.0
+    url: https://usegalaxy.org.au/root?tool_id=toolshed.g2.bx.psu.edu%2Frepos%2Fiuc%2Fcolumn_remove_by_header%2Fcolumn_remove_by_header%2F1.0
   - description: 'Pick parameter value: '
     title: Pick parameter value 0.2.0
     url: https://usegalaxy.org.au/root?tool_id=toolshed.g2.bx.psu.edu%2Frepos%2Fiuc%2Fpick_value%2Fpick_value%2F0.2.0
@@ -8390,6 +8552,9 @@
   - description: 'Get organelle from reads: '
     title: Get organelle from reads 1.7.7.1+galaxy0
     url: https://usegalaxy.org.au/root?tool_id=toolshed.g2.bx.psu.edu%2Frepos%2Fiuc%2Fgetorganelle%2Fget_organelle_from_reads%2F1.7.7.1%2Bgalaxy0
+  - description: 'Get annotated regions from genbank files (getorganelle): '
+    title: Get annotated regions from genbank files (getorganelle) 0.1.0
+    url: https://usegalaxy.org.au/root?tool_id=toolshed.g2.bx.psu.edu%2Frepos%2Fiuc%2Fgetorganelle%2Fget_annotated_regions_from_gb%2F0.1.0
   homepage: https://github.com/Kinggerm/GetOrganelle
   id: getorganelle
   license: GPL-3.0
@@ -10541,26 +10706,26 @@
   - Evolutionary biology
   - Sequencing
   galaxy:
-  - description: 'ivar consensus: Call consensus from aligned BAM file'
-    title: ivar consensus 1.4.2+galaxy0
-    url: https://usegalaxy.org.au/root?tool_id=toolshed.g2.bx.psu.edu%2Frepos%2Fiuc%2Fivar_consensus%2Fivar_consensus%2F1.4.2%2Bgalaxy0
+  - description: 'ivar variants: Call variants from aligned BAM file'
+    title: ivar variants 1.4.3+galaxy1
+    url: https://usegalaxy.org.au/root?tool_id=toolshed.g2.bx.psu.edu%2Frepos%2Fiuc%2Fivar_variants%2Fivar_variants%2F1.4.3%2Bgalaxy1
   - description: 'ivar filtervariants: Filter variants across replicates or multiple
       samples aligned using the same reference'
-    title: ivar filtervariants 1.4.2+galaxy0
-    url: https://usegalaxy.org.au/root?tool_id=toolshed.g2.bx.psu.edu%2Frepos%2Fiuc%2Fivar_filtervariants%2Fivar_filtervariants%2F1.4.2%2Bgalaxy0
+    title: ivar filtervariants 1.4.3+galaxy0
+    url: https://usegalaxy.org.au/root?tool_id=toolshed.g2.bx.psu.edu%2Frepos%2Fiuc%2Fivar_filtervariants%2Fivar_filtervariants%2F1.4.3%2Bgalaxy0
+  - description: 'ivar consensus: Call consensus from aligned BAM file'
+    title: ivar consensus 1.4.3+galaxy0
+    url: https://usegalaxy.org.au/root?tool_id=toolshed.g2.bx.psu.edu%2Frepos%2Fiuc%2Fivar_consensus%2Fivar_consensus%2F1.4.3%2Bgalaxy0
   - description: 'ivar getmasked: Detect primer mismatches and get primer indices
       for the amplicon to be masked'
     title: ivar getmasked 1.2.2+galaxy0
     url: https://usegalaxy.org.au/root?tool_id=toolshed.g2.bx.psu.edu%2Frepos%2Fiuc%2Fivar_getmasked%2Fivar_getmasked%2F1.2.2%2Bgalaxy0
   - description: 'ivar removereads: Remove reads from trimmed BAM file'
-    title: ivar removereads 1.4.2+galaxy0
-    url: https://usegalaxy.org.au/root?tool_id=toolshed.g2.bx.psu.edu%2Frepos%2Fiuc%2Fivar_removereads%2Fivar_removereads%2F1.4.2%2Bgalaxy0
+    title: ivar removereads 1.4.3+galaxy0
+    url: https://usegalaxy.org.au/root?tool_id=toolshed.g2.bx.psu.edu%2Frepos%2Fiuc%2Fivar_removereads%2Fivar_removereads%2F1.4.3%2Bgalaxy0
   - description: 'ivar trim: Trim reads in aligned BAM'
     title: ivar trim 1.4.2+galaxy0
     url: https://usegalaxy.org.au/root?tool_id=toolshed.g2.bx.psu.edu%2Frepos%2Fiuc%2Fivar_trim%2Fivar_trim%2F1.4.2%2Bgalaxy0
-  - description: 'ivar variants: Call variants from aligned BAM file'
-    title: ivar variants 1.4.2+galaxy1
-    url: https://usegalaxy.org.au/root?tool_id=toolshed.g2.bx.psu.edu%2Frepos%2Fiuc%2Fivar_variants%2Fivar_variants%2F1.4.2%2Bgalaxy1
   homepage: https://github.com/CGR-UNIMORE/iVar
   id: ivar
   license: AGPL-3.0
@@ -12016,65 +12181,25 @@
   - Statistics and probability
   - Sequence analysis
   - DNA mutation
-  galaxy: ''
-  homepage: https://github.com/marbl/mash
-  id: mash
-  license: CC-BY-4.0
-  name: mash
-  nci-gadi: ''
-  nci-if89: ''
-  pawsey: ''
-  publications:
-  - title: 10.1186/s13059-016-0997-x
-    url: https://doi.org/10.1186/s13059-016-0997-x
-  resources:
-  - title: .nan
-    url: .nan
-- biocontainers: ''
-  biotools: ''
-  bunya: ''
-  description: ''
-  edam-inputs: ''
-  edam-operations: ''
-  edam-outputs: ''
-  edam-topics: ''
   galaxy:
   - description: 'mash screen: determines how well query sequences are contained within
       a pool of sequences'
     title: mash screen 2.3+galaxy3
     url: https://usegalaxy.org.au/root?tool_id=toolshed.g2.bx.psu.edu%2Frepos%2Fiuc%2Fmash%2Fmash_screen%2F2.3%2Bgalaxy3
-  homepage: ''
-  id: mash_screen
-  license: ''
-  name: mash_screen
-  nci-gadi: ''
-  nci-if89: ''
-  pawsey: ''
-  publications: ''
-  resources:
-  - title: .nan
-    url: .nan
-- biocontainers: ''
-  biotools: ''
-  bunya: ''
-  description: ''
-  edam-inputs: ''
-  edam-operations: ''
-  edam-outputs: ''
-  edam-topics: ''
-  galaxy:
   - description: 'mash sketch: Create a reduced representation of a sequence or set
       of sequences, based on min-hashes'
     title: mash sketch 2.3+galaxy0
     url: https://usegalaxy.org.au/root?tool_id=toolshed.g2.bx.psu.edu%2Frepos%2Fiuc%2Fmash_sketch%2Fmash_sketch%2F2.3%2Bgalaxy0
-  homepage: ''
-  id: mash_sketch
-  license: ''
-  name: mash_sketch
+  homepage: https://github.com/marbl/mash
+  id: mash
+  license: CC-BY-4.0
+  name: mash
   nci-gadi: ''
   nci-if89: ''
   pawsey: ''
-  publications: ''
+  publications:
+  - title: 10.1186/s13059-016-0997-x
+    url: https://doi.org/10.1186/s13059-016-0997-x
   resources:
   - title: .nan
     url: .nan
@@ -12511,7 +12636,7 @@
   homepage: ''
   id: merge_cols
   license: ''
-  name: merge_cols
+  name: ' Merge Columns'
   nci-gadi: ''
   nci-if89: ''
   pawsey: ''
@@ -12645,29 +12770,6 @@
   resources:
   - title: .nan
     url: .nan
-- biocontainers: ''
-  biotools: ''
-  bunya: ''
-  description: ''
-  edam-inputs: ''
-  edam-operations: ''
-  edam-outputs: ''
-  edam-topics: ''
-  galaxy:
-  - description: 'metabolicMine: server'
-    title: metabolicMine 1.0.0
-    url: https://usegalaxy.org.au//tool_runner/data_source_redirect?tool_id=metabolicmine
-  homepage: ''
-  id: metabolicmine
-  license: ''
-  name: metabolicmine
-  nci-gadi: ''
-  nci-if89: ''
-  pawsey: ''
-  publications: ''
-  resources:
-  - title: .nan
-    url: .nan
 - biocontainers: MetaDEGalaxy
   biotools: MetaDEGalaxy
   bunya: ''
@@ -13286,6 +13388,27 @@
   resources:
   - title: .nan
     url: .nan
+- biocontainers: ''
+  biotools: ''
+  bunya: ''
+  description: ''
+  edam-inputs: ''
+  edam-operations: ''
+  edam-outputs: ''
+  edam-topics: ''
+  galaxy: ''
+  homepage: ''
+  id: minigraph
+  license: ''
+  name: minigraph
+  nci-gadi: ''
+  nci-if89:
+  - '0.20'
+  pawsey: ''
+  publications: ''
+  resources:
+  - title: .nan
+    url: .nan
 - biocontainers: minimap2
   biotools: minimap2
   bunya:
@@ -13391,7 +13514,7 @@
   homepage: https://github.com/ARTbio/tools-artbio/tree/master/tools/mircounts
   id: mircounts
   license: ''
-  name: mircounts
+  name: miRcounts
   nci-gadi: ''
   nci-if89: ''
   pawsey: ''
@@ -13449,7 +13572,7 @@
   homepage: ''
   id: mitobim
   license: ''
-  name: mitobim
+  name: MITObim
   nci-gadi: ''
   nci-if89: ''
   pawsey: ''
@@ -13758,6 +13881,35 @@
   resources:
   - title: .nan
     url: .nan
+- biocontainers: mosdepth
+  biotools: mosdepth
+  bunya: ''
+  description: Fast BAM/CRAM depth calculation for WGS, exome, or targeted sequencing.
+  edam-inputs: []
+  edam-operations:
+  - Nucleic acid sequence analysis
+  - Read depth analysis
+  edam-outputs: []
+  edam-topics:
+  - Statistics and probability
+  - Data quality management
+  galaxy:
+  - description: 'mosdepth: - fast and flexible depth coverage calculation'
+    title: mosdepth 0.3.8+galaxy0
+    url: https://usegalaxy.org.au/root?tool_id=toolshed.g2.bx.psu.edu%2Frepos%2Fiuc%2Fmosdepth%2Fmosdepth%2F0.3.8%2Bgalaxy0
+  homepage: https://github.com/brentp/mosdepth
+  id: mosdepth
+  license: MIT
+  name: mosdepth
+  nci-gadi: ''
+  nci-if89: ''
+  pawsey: ''
+  publications:
+  - title: 'Mosdepth: Quick coverage calculation for genomes and exomes'
+    url: https://doi.org/10.1093/bioinformatics/btx699
+  resources:
+  - title: .nan
+    url: .nan
 - biocontainers: mothur
   biotools: mothur
   bunya: ''
@@ -14971,7 +15123,7 @@
   homepage: ''
   id: natural_product_likeness_scorer
   license: ''
-  name: natural_product_likeness_scorer
+  name: Natural-Product-Likeness Scorer
   nci-gadi: ''
   nci-if89: ''
   pawsey: ''
@@ -15539,7 +15691,7 @@
   homepage: ''
   id: nvc
   license: ''
-  name: nvc
+  name: Naive Variant Caller (NVC)
   nci-gadi: ''
   nci-if89: ''
   pawsey: ''
@@ -16070,7 +16222,7 @@
   homepage: ''
   id: param_value_from_file
   license: ''
-  name: param_value_from_file
+  name: Parse parameter value
   nci-gadi: ''
   nci-if89: ''
   pawsey: ''
@@ -16131,7 +16283,7 @@
   homepage: ''
   id: parse_mito_blast
   license: ''
-  name: parse_mito_blast
+  name: Parse mitochondrial blast
   nci-gadi: ''
   nci-if89: ''
   pawsey: ''
@@ -16446,7 +16598,7 @@
   homepage: ''
   id: peptide_genomic_coordinate
   license: ''
-  name: peptide_genomic_coordinate
+  name: ' Peptide Genomic Coordinate'
   nci-gadi: ''
   nci-if89: ''
   pawsey: ''
@@ -16978,7 +17130,7 @@
   homepage: ''
   id: pileup_interval
   license: ''
-  name: pileup_interval
+  name: Pileup-to-Interval
   nci-gadi: ''
   nci-if89: ''
   pawsey: ''
@@ -17001,7 +17153,7 @@
   homepage: ''
   id: pileup_parser
   license: ''
-  name: pileup_parser
+  name: ' Filter pileup '
   nci-gadi: ''
   nci-if89: ''
   pawsey: ''
@@ -17137,36 +17289,6 @@
   resources:
   - title: .nan
     url: .nan
-- biocontainers: ''
-  biotools: ''
-  bunya: ''
-  description: ''
-  edam-inputs: ''
-  edam-operations: ''
-  edam-outputs: ''
-  edam-topics: ''
-  galaxy:
-  - description: 'Plot confusion matrix, precision, recall and ROC and AUC curves:
-      of tabular data'
-    title: Plot confusion matrix, precision, recall and ROC and AUC curves 0.3
-    url: https://usegalaxy.org.au/root?tool_id=toolshed.g2.bx.psu.edu%2Frepos%2Fbgruening%2Fplotly_ml_performance_plots%2Fplotly_ml_performance_plots%2F0.3
-  - description: 'Parallel Coordinates Plot: of tabular data'
-    title: Parallel Coordinates Plot 0.2
-    url: https://usegalaxy.org.au/root?tool_id=toolshed.g2.bx.psu.edu%2Frepos%2Fbgruening%2Fplotly_parallel_coordinates_plot%2Fplotly_parallel_coordinates_plot%2F0.2
-  - description: 'Plot actual vs predicted curves and residual plots: of tabular data'
-    title: Plot actual vs predicted curves and residual plots 0.1
-    url: https://usegalaxy.org.au/root?tool_id=toolshed.g2.bx.psu.edu%2Frepos%2Fbgruening%2Fplotly_regression_performance_plots%2Fplotly_regression_performance_plots%2F0.1
-  homepage: ''
-  id: plotly
-  license: ''
-  name: plotly
-  nci-gadi: ''
-  nci-if89: ''
-  pawsey: ''
-  publications: ''
-  resources:
-  - title: .nan
-    url: .nan
 - biocontainers: pnetcdf
   biotools: pnetcdf
   bunya: ''
@@ -17207,7 +17329,7 @@
   homepage: ''
   id: poisson2test
   license: ''
-  name: poisson2test
+  name: Poisson two-sample test
   nci-gadi: ''
   nci-if89: ''
   pawsey: ''
@@ -17345,7 +17467,7 @@
   homepage: ''
   id: pretext_map
   license: ''
-  name: pretext_map
+  name: PretextMap
   nci-gadi: ''
   nci-if89: ''
   pawsey: ''
@@ -19176,7 +19298,7 @@
   homepage: ''
   id: repenrich
   license: ''
-  name: repenrich
+  name: RepEnrich
   nci-gadi: ''
   nci-if89: ''
   pawsey: ''
@@ -19671,7 +19793,7 @@
   homepage: ''
   id: salmon_kallisto_mtx_to_10x
   license: ''
-  name: salmon_kallisto_mtx_to_10x
+  name: ' salmonKallistoMtxTo10x'
   nci-gadi: ''
   nci-if89: ''
   pawsey: ''
@@ -19732,7 +19854,7 @@
   homepage: ''
   id: sam_bitwise_flag_filter
   license: ''
-  name: sam_bitwise_flag_filter
+  name: Filter SAM
   nci-gadi: ''
   nci-if89: ''
   pawsey: ''
@@ -20329,7 +20451,7 @@
   homepage: ''
   id: sdf_to_tab
   license: ''
-  name: sdf_to_tab
+  name: Extract values from an SD-file
   nci-gadi: ''
   nci-if89: ''
   pawsey: ''
@@ -20392,29 +20514,6 @@
   resources:
   - title: .nan
     url: .nan
-- biocontainers: ''
-  biotools: ''
-  bunya: ''
-  description: ''
-  edam-inputs: ''
-  edam-operations: ''
-  edam-outputs: ''
-  edam-topics: ''
-  galaxy:
-  - description: 'Filter sequences by ID: from a tabular file'
-    title: Filter sequences by ID 0.2.9
-    url: https://usegalaxy.org.au/root?tool_id=toolshed.g2.bx.psu.edu%2Frepos%2Fpeterjc%2Fseq_filter_by_id%2Fseq_filter_by_id%2F0.2.9
-  homepage: ''
-  id: seq_filter_by_id
-  license: ''
-  name: seq_filter_by_id
-  nci-gadi: ''
-  nci-if89: ''
-  pawsey: ''
-  publications: ''
-  resources:
-  - title: .nan
-    url: .nan
 - biocontainers: ''
   biotools: ''
   bunya: ''
@@ -22240,8 +22339,8 @@
   galaxy:
   - description: 'TB-Profiler Profile: Infer strain types and drug resistance markers
       from sequences'
-    title: TB-Profiler Profile 6.2.1+galaxy0
-    url: https://usegalaxy.org.au/root?tool_id=toolshed.g2.bx.psu.edu%2Frepos%2Fiuc%2Ftbprofiler%2Ftb_profiler_profile%2F6.2.1%2Bgalaxy0
+    title: TB-Profiler Profile 6.2.1+galaxy1
+    url: https://usegalaxy.org.au/root?tool_id=toolshed.g2.bx.psu.edu%2Frepos%2Fiuc%2Ftbprofiler%2Ftb_profiler_profile%2F6.2.1%2Bgalaxy1
   homepage: https://github.com/jodyphelan/TBProfiler
   id: tbprofiler
   license: GPL-3.0
@@ -22812,6 +22911,27 @@
   resources:
   - title: .nan
     url: .nan
+- biocontainers: ''
+  biotools: ''
+  bunya: ''
+  description: ''
+  edam-inputs: ''
+  edam-operations: ''
+  edam-outputs: ''
+  edam-topics: ''
+  galaxy: ''
+  homepage: ''
+  id: trf-mod
+  license: ''
+  name: TRF-mod
+  nci-gadi: ''
+  nci-if89:
+  - 4.10.0
+  pawsey: ''
+  publications: ''
+  resources:
+  - title: .nan
+    url: .nan
 - biocontainers: trimal
   biotools: trimal
   bunya: ''
@@ -22837,7 +22957,7 @@
   - Sequencing
   - Sequence sites, features and motifs
   galaxy: ''
-  homepage: http://trimal.cgenomics.org
+  homepage: https://trimal.readthedocs.io
   id: trimal
   license: ''
   name: trimAl