Skip to content

Tags: MrTomRod/scoary-2

Tags

v0.0.15

Fix sensitivity/specificity for genes negatively correlated to trait. #7

v0.0.14

Fix legend, fix --max-genes, improve newick parser

v0.0.13

Push to 0.0.13: Split trait analysis in two multiprocessed parts: one…

… for Fisher's test, one for pair picking. In between: multiple testing.

0.0.12

issue #5; v0.0.12

0.0.11

Push to 0.0.11:

- add reference to bioRxiv preprint
- change binom_test (deprecated) to binomtest
- update packages

0.0.10

Push to 0.0.10:

- improve app UI
- update packages

0.0.9

Push to 0.0.9:

- fix issues caused by new matplotlib and pandas
- change Dockerfile to local install

0.0.8

Push to 0.0.8:

- update dependencies (fix security vulnerability)
- use average instead of single to create dendrogram in final_overview.py
- add logo, replace favicon
- fix dendrogram label order

0.0.7

Push to 0.0.7:

- fix gene count binarization bug (issue #2)
- add filtration option 'native'
- cleanup picking code
- improve Dockerfile

0.0.6

Push to 0.0.6:

- add parameter worst_cutoff: use worst pvalue as cutoff
- add parameter max_genes: limit the number of permuted genes
- add parameter n_cpus_binarization
- improve performance of init_result_df
- binarization: ensure lower value has absent trait
- move from dictionaries to pd.Series
- remove old code
- dendrogram: fix clickable patches size