view test-data/procrad/process_radtags2.out @ 5:42201b90e3f4 draft

"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/stacks2 commit 16654f3b3faaba994cea5fda8d4907ea4f059605"
author iuc
date Thu, 14 Apr 2022 09:26:53 +0000
parents b75174403a65
children
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process_radtags v2.55, executed 2022-01-04 19:49:47 (zlib-1.2.11)
process_radtags -p stacks_inputs/ -i gzfastq -b /tmp/tmp1omqb2_d/files/6/1/9/dataset_6199c14a-22f0-45b7-aea7-7725c6dbf716.dat --inline_null -y gzfastq -o stacks_outputs -w 0.1 -s 11 -c -q -D -e ecoRI
File	Retained Reads	Low Quality	Barcode Not Found	RAD cutsite Not Found	Total
R1.fastq.gz	2222	0	0	4778	7000
R2.fastq.gz	0	0	7000	0	7000

Total Sequences	14000
Barcode Not Found	7000
Low Quality	0
RAD Cutsite Not Found	4778
Retained Reads	2222

Barcode	Filename	Total	NoRadTag	LowQuality	Retained
ATGGGG	PopA_01	160	94	0	66
GGGTAA	PopA_02	146	86	0	60
AGGAAA	PopA_03	224	132	0	92
TTTAAG	PopA_04	168	146	0	22
GGTGTG	PopA_05	220	154	0	66
TGATGT	PopA_06	214	147	0	67
GGTTGT	PopA_07	182	137	0	45
ATAAGT	PopA_08	232	164	0	68
AAGATA	PopA_09	182	134	0	48
TGTGAG	PopA_10	168	128	0	40
ATAGTT	PopA_11	200	132	0	68
GGAAGG	PopA_12	178	136	0	42
TTTGTG	PopA_13	190	152	0	38
TTAAAT	PopA_14	166	96	0	70
AATAAG	PopA_15	152	74	0	78
AAGAGG	PopA_16	174	112	0	62
TAGTGT	PopA_17	242	146	0	96
TGGAAG	PopA_18	148	98	0	50
GGGTTG	PopA_19	110	64	0	46
CATCAT	PopA_20	178	144	0	34
GGAGAG	PopB_20	210	142	0	68
GTTTTA	PopB_01	136	90	0	46
TGATAA	PopB_02	166	108	0	58
GTTGAT	PopB_03	148	74	0	74
AGATTA	PopB_04	180	156	0	24
GTATAG	PopB_05	136	106	0	30
TTGGGA	PopB_06	166	112	0	54
ATATAT	PopB_07	242	156	0	86
GATGAG	PopB_08	208	152	0	56
GGGAAT	PopB_09	198	126	0	72
AGTAAT	PopB_10	164	120	0	44
GGGATA	PopB_11	146	90	0	56
GAGAAG	PopB_12	162	110	0	52
AGTAGA	PopB_13	204	146	0	58
AAGGAT	PopB_14	180	128	0	52
AGGGTA	PopB_15	134	72	0	62
TGTTTT	PopB_16	138	98	0	40
ATGATG	PopB_17	142	100	0	42
GAGTTA	PopB_18	160	112	0	48
ATGTAG	PopB_19	146	104	0	42

Sequences not recorded
Barcode	Total
CCGGTG	772
CCGCGC	750
CCGACA	743
CCGGTC	723
CCGCCT	695
CCGTGG	675
CCGGTT	667
CCGATC	579
CCGTGT	417
CCGTAT	252
CCGCGT	198
CCGCGG	150
CCGCAT	117
CCGTTC	94
CCGTAC	38
CCGGGA	32
CCGGAG	26
CCGAAC	24
CCGAGT	18
CCGTGA	10
CCGGGT	7
CCGCTT	2
CCGACG	2
CCGATT	1
CCGCCC	1
CCGGCA	1
CCGGCT	1
CCGGGG	1
CCGCCG	1
CCGTGC	1
CCGTAG	1
CCGACT	1