Added Brumfield

naobservatory · Apr 8, 2024 · f562da9 · f562da9
1 parent edd5490
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diff --git a/data/2024-03-19_brumfield/blast/brumfield-putative-viral.blast.gz b/data/2024-03-19_brumfield/blast/brumfield-putative-viral.blast.gz
diff --git a/data/2024-03-19_brumfield/bracken_counts.tsv b/data/2024-03-19_brumfield/bracken_counts.tsv
@@ -0,0 +1,49 @@
+name	taxonomy_id	taxonomy_lvl	kraken_assigned_reads	added_reads	new_est_reads	fraction_total_reads	sample
+Bacteria	2	D	410118	598	410716	0.49368	SRR18218730
+Eukaryota	2759	D	26203	356	26559	0.03192	SRR18218730
+Archaea	2157	D	372	1	373	4.5e-4	SRR18218730
+Viruses	10239	D	394232	62	394294	0.47394	SRR18218730
+Bacteria	2	D	159069	251	159320	0.48767	SRR18218731
+Eukaryota	2759	D	53482	402	53884	0.16494	SRR18218731
+Archaea	2157	D	1827	2	1829	0.0056	SRR18218731
+Viruses	10239	D	111626	38	111664	0.3418	SRR18218731
+Bacteria	2	D	347009	449	347458	0.53399	SRR18218719
+Eukaryota	2759	D	50971	621	51592	0.07929	SRR18218719
+Archaea	2157	D	1704	2	1706	0.00262	SRR18218719
+Viruses	10239	D	249780	148	249928	0.3841	SRR18218719
+Bacteria	2	D	4973268	2891	4976159	0.98879	SRR18218723
+Archaea	2157	D	10226	7	10233	0.00203	SRR18218723
+Eukaryota	2759	D	9221	46	9267	0.00184	SRR18218723
+Viruses	10239	D	36829	71	36900	0.00733	SRR18218723
+Bacteria	2	D	8773502	5493	8778995	0.99666	SRR18218721
+Eukaryota	2759	D	4542	13	4555	5.2e-4	SRR18218721
+Archaea	2157	D	3033	1	3034	3.4e-4	SRR18218721
+Viruses	10239	D	21688	126	21814	0.00248	SRR18218721
+Bacteria	2	D	6524282	3664	6527946	0.99557	SRR18218724
+Archaea	2157	D	5279	1	5280	8.1e-4	SRR18218724
+Eukaryota	2759	D	1398	3	1401	2.1e-4	SRR18218724
+Viruses	10239	D	22322	32	22354	0.00341	SRR18218724
+Bacteria	2	D	7366420	4163	7370583	0.99796	SRR18218732
+Archaea	2157	D	4593	2	4595	6.2e-4	SRR18218732
+Eukaryota	2759	D	2556	9	2565	3.5e-4	SRR18218732
+Viruses	10239	D	7738	162	7900	0.00107	SRR18218732
+Bacteria	2	D	472275	450	472725	0.70634	SRR18218718
+Eukaryota	2759	D	7614	95	7709	0.01152	SRR18218718
+Archaea	2157	D	3174	0	3174	0.00474	SRR18218718
+Viruses	10239	D	185568	82	185650	0.2774	SRR18218718
+Bacteria	2	D	637515	491	638006	0.68607	SRR18218720
+Eukaryota	2759	D	17038	114	17152	0.01844	SRR18218720
+Archaea	2157	D	8311	0	8311	0.00894	SRR18218720
+Viruses	10239	D	266433	40	266473	0.28655	SRR18218720
+Bacteria	2	D	167482	450	167932	0.57051	SRR18218717
+Eukaryota	2759	D	50056	661	50717	0.1723	SRR18218717
+Archaea	2157	D	6881	3	6884	0.02339	SRR18218717
+Viruses	10239	D	68769	48	68817	0.23379	SRR18218717
+Bacteria	2	D	7803355	3720	7807075	0.99744	SRR18218722
+Eukaryota	2759	D	6691	34	6725	8.6e-4	SRR18218722
+Archaea	2157	D	5393	3	5396	6.9e-4	SRR18218722
+Viruses	10239	D	7860	87	7947	0.00102	SRR18218722
+Bacteria	2	D	9950693	6249	9956942	0.99291	SRR18218733
+Archaea	2157	D	5272	2	5274	5.3e-4	SRR18218733
+Eukaryota	2759	D	3276	13	3289	3.3e-4	SRR18218733
+Viruses	10239	D	62249	327	62576	0.00624	SRR18218733
diff --git a/data/2024-03-19_brumfield/bracken_counts_subset.tsv b/data/2024-03-19_brumfield/bracken_counts_subset.tsv
@@ -0,0 +1,49 @@
+name	taxonomy_id	taxonomy_lvl	kraken_assigned_reads	added_reads	new_est_reads	fraction_total_reads	sample
+Bacteria	2	D	680181	414	680595	0.99817	SRR18218732
+Archaea	2157	D	388	0	388	5.7e-4	SRR18218732
+Eukaryota	2759	D	185	0	185	2.7e-4	SRR18218732
+Viruses	10239	D	663	11	674	9.9e-4	SRR18218732
+Bacteria	2	D	437286	255	437541	0.98995	SRR18218723
+Archaea	2157	D	826	0	826	0.00187	SRR18218723
+Eukaryota	2759	D	723	3	726	0.00164	SRR18218723
+Viruses	10239	D	2883	4	2887	0.00653	SRR18218723
+Bacteria	2	D	632537	314	632851	0.99776	SRR18218722
+Eukaryota	2759	D	433	2	435	6.9e-4	SRR18218722
+Archaea	2157	D	374	0	374	5.9e-4	SRR18218722
+Viruses	10239	D	600	8	608	9.6e-4	SRR18218722
+Bacteria	2	D	1076980	639	1077619	0.99708	SRR18218721
+Eukaryota	2759	D	444	1	445	4.1e-4	SRR18218721
+Archaea	2157	D	319	0	319	3e-4	SRR18218721
+Viruses	10239	D	2374	12	2386	0.00221	SRR18218721
+Bacteria	2	D	946344	581	946925	0.99377	SRR18218733
+Archaea	2157	D	439	0	439	4.6e-4	SRR18218733
+Eukaryota	2759	D	238	0	238	2.5e-4	SRR18218733
+Viruses	10239	D	5210	50	5260	0.00552	SRR18218733
+Bacteria	2	D	805764	965	806729	0.88089	SRR18218730
+Eukaryota	2759	D	46991	1336	48327	0.05277	SRR18218730
+Archaea	2157	D	76	0	76	8e-5	SRR18218730
+Viruses	10239	D	60671	4	60675	0.06625	SRR18218730
+Bacteria	2	D	1215948	383	1216331	0.93761	SRR18218720
+Eukaryota	2759	D	26490	224	26714	0.02059	SRR18218720
+Archaea	2157	D	7335	1	7336	0.00565	SRR18218720
+Viruses	10239	D	46885	1	46886	0.03614	SRR18218720
+Bacteria	2	D	402898	379	403277	0.66096	SRR18218731
+Eukaryota	2759	D	165123	2053	167176	0.274	SRR18218731
+Archaea	2157	D	1620	2	1622	0.00266	SRR18218731
+Viruses	10239	D	38061	3	38064	0.06239	SRR18218731
+Bacteria	2	D	2530011	186	2530197	0.98688	SRR18218718
+Eukaryota	2759	D	7258	69	7327	0.00286	SRR18218718
+Archaea	2157	D	1780	0	1780	6.9e-4	SRR18218718
+Viruses	10239	D	24520	5	24525	0.00957	SRR18218718
+Bacteria	2	D	677838	350	678188	0.99606	SRR18218724
+Archaea	2157	D	454	0	454	6.7e-4	SRR18218724
+Eukaryota	2759	D	144	0	144	2.1e-4	SRR18218724
+Viruses	10239	D	2077	3	2080	0.00305	SRR18218724
+Bacteria	2	D	559878	1322	561200	0.68835	SRR18218719
+Eukaryota	2759	D	159345	3533	162878	0.19978	SRR18218719
+Archaea	2157	D	2289	3	2292	0.00281	SRR18218719
+Viruses	10239	D	88893	15	88908	0.10905	SRR18218719
+Bacteria	2	D	588702	789	589491	0.65551	SRR18218717
+Eukaryota	2759	D	259960	4200	264160	0.29374	SRR18218717
+Archaea	2157	D	18785	13	18798	0.0209	SRR18218717
+Viruses	10239	D	26832	8	26840	0.02985	SRR18218717