updated 5 days ago by
alanh
▴
170
•
written 7.1 years ago by
jonessara770
▴
240
38
votes
12
replies
31k
views
9 follow
19
votes
10
replies
7.3k
views
7 follow
13
votes
18
replies
6.2k
views
9 follow
updated 8 hours ago by
Dunois
★
2.5k
•
written 3.2 years ago by
chiachoong_leong93
▴
20
4
votes
5
replies
4.4k
views
updated 5 days ago by
dario.garvan
▴
520
•
written 7.2 years ago by
d-cameron
★
2.9k
0
votes
7
replies
4.3k
views
updated 4 days ago by
aidangcruickshank
▴
10
•
written 3.7 years ago by
rthapa
▴
90
7
votes
14
replies
2.9k
views
6 follow
19
votes
15
replies
2.3k
views
updated 1 day ago by
Mohamed
•
0
•
written 8 months ago by
vincenthus
▴
70
2
votes
6
replies
1.9k
views
0
votes
3
replies
1.8k
views
updated 22 hours ago by
Ram
44k
•
written 3.0 years ago by
giulia.trauzzi
▴
10
1
vote
6
replies
1.5k
views
updated 3 days ago by
scideas
▴
30
•
written 8 months ago by
rohitsatyam102
▴
870
2
votes
10
replies
1.1k
views
2
votes
3
replies
1.1k
views
4
votes
11
replies
923
views
1
vote
5
replies
816
views
written 6 months ago by
Daniel
▴
30
1
vote
3
replies
811
views
updated 5 days ago by
sansan_96
▴
90
•
written 2.8 years ago by
boymin2020
▴
80
1
vote
16
replies
797
views
updated 4 days ago by
GenoMax
142k
•
written 7 days ago by
hophuquy0944
•
0
2
votes
11
replies
780
views
1
vote
1
reply
732
views
1
vote
2
replies
727
views
updated 3 days ago by
Muhammad
•
0
•
written 2.6 years ago by
mari.johnson
•
0
4
votes
9
replies
645
views
updated 1 day ago by
marco.barr
▴
130
•
written 7 days ago by
diqixiaoyaoer
▴
20
0
votes
9
replies
619
views
6 days ago by
Arton
▴
10
0
votes
1
reply
606
views
updated 2 days ago by
fu_entomology
▴
40
•
written 8 months ago by
juliviglino
•
0
0
votes
1
reply
598
views
updated 6 days ago by
valdirbarth
▴
20
•
written 13 months ago by
Salomé
•
0
2
votes
7
replies
591
views
updated 5 hours ago by
letizia.ottaviani
•
0
•
written 5 weeks ago by
sansan_96
▴
90
1
vote
10
replies
572
views
1
vote
3
replies
551
views
0
votes
8
replies
542
views
updated 2 days ago by
Pierre Lindenbaum
162k
•
written 11 days ago by
ajbarrett98
•
0
4
votes
9
replies
521
views
1
vote
8
replies
491
views
updated 4 days ago by
Alex Reynolds
35k
•
written 8 days ago by
ntsopoul
▴
60
0
votes
1
reply
463
views
updated 5 days ago by
GenoMax
142k
•
written 5 days ago by
huxiangyulove
•
0
3
votes
5
replies
453
views
1 day ago by
beantkapoor16
▴
10
3
votes
4
replies
435
views
3
votes
5
replies
435
views
updated 22 hours ago by
jared.andrews07
★
17k
•
written 20 days ago by
Oburah
•
0
0
votes
9
replies
397
views
6 days ago by
njornet
▴
20
1
vote
5
replies
393
views
0
votes
6
replies
387
views
6
votes
4
replies
382
views
1
vote
2
replies
381
views
0
votes
4
replies
370
views
updated 4 days ago by
txema.heredia
▴
130
•
written 5 days ago by
Ngrin
•
0
0
votes
4
replies
362
views
5 days ago by
kilcdincer
▴
10
1
vote
6
replies
361
views
3
votes
4
replies
356
views
0
votes
5
replies
356
views
1 day ago by
mavy
▴
10
1
vote
2
replies
355
views
updated 2 days ago by
Tommaso
•
0
•
written 3 months ago by
pt.taklifi
▴
60
0
votes
4
replies
351
views
1
vote
4
replies
350
views
1
vote
5
replies
343
views
updated 5 days ago by
Ram
44k
•
written 6 days ago by
manuelmourato25
•
0
2
votes
3
replies
342
views
0
votes
4
replies
337
views
0
votes
5
replies
325
views
Recent Votes
Recent Locations •
All
Vietnam, 1 minute ago
United States, 1 minute ago
France, 1 minute ago
Hong Kong, 5 minutes ago
United States, 6 minutes ago
United States, 7 minutes ago
USA, 9 minutes ago
Recent Awards •
All
Popular Question to
Wilber0x
▴
50
Scholar to
Ashutosh Pandey
12k
Popular Question to
pinheirofabiano
▴
20
Popular Question to
andres_arroyo
•
0
Popular Question to
Tawny
▴
180
Popular Question to
anasjamshed
▴
120
Student to
Rafael Soler
★
1.2k
Recent Replies
Comment: FastQC interpretation - 16S sequencing
by
GenoMax
142k
Since a specific region is being amplified it is expected that many of the library fragments will have identical sequences. Thus the low nu…
Comment: FastQC interpretation - 16S sequencing
by
Christopher
•
0
@genomax Thank you so much for replying. I was quite unsure about the qualities. One more question. There is no problem within nucleotide d…
Comment: FastQC interpretation - 16S sequencing
by
GenoMax
142k
> My specific question is about the feasibility of per base sequence content analysis and whether I should be concerned about a particular …
Comment: How to get the ratio of allele counts from GATK derived VCF file?
by
anikcropscience
▴
230
But I used the same bam files in both freebayes and GATK. Even the overlapping SNPs from both software are giving different estimates in te…
Comment: How to get the ratio of allele counts from GATK derived VCF file?
by
Pierre Lindenbaum
162k
may be downsampling(?), QC failing reads ?
Comment: How to get the ratio of allele counts from GATK derived VCF file?
by
anikcropscience
▴
230
Thank you. However, I extracted the AD for each SNP that gives two numbers separated by a comma. I guess the first one is for reference and…
Answer: How to get the ratio of allele counts from GATK derived VCF file?
by
Pierre Lindenbaum
162k
> However, I am doing SNP calling using GATK, but there is no such information field for reference and alternate allele counts.
it's in …
Comment: samtools write-index
by
GenoMax
142k
> The index file is older than the data file: alignment.sorted.bam.bai
I don't think that warning is going to cause any issues. Not sure w…
Comment: samtools write-index
by
Pierre Lindenbaum
162k
can you please retry, but add
rm -vf alignment.sorted.bam.bai
before invoking minimap2. And `-o alignment.sorted.bam` should be enoug…
Answer: from CRAM to fastq
by
Pierre Lindenbaum
162k
if the CRAM/BAM is paire-end, it **must** be sorted on query name using samtools collate
https://x.com/lh3lh3/status/1132756684789768202
…
Comment: from CRAM to fastq
by
machaalani29
•
0
one of the issues is that I am not very sure how the sequencing was done, but I think it was single end.
any suggestions hoot do that?
Comment: from CRAM to fastq
by
GenoMax
142k
Possibly. You appear to have written the data to a single file (in case it was paired-end to begin with). Check to make sure secondary alig…
Comment: converting transcript IDs (Ensembl) to gene symbols in R
by
GenoMax
142k
https://www.biostars.org/u/18990/ : Please do not delete threads that have received a comment/answer.
Comment: downloading chemical database from ChEMBL
by
GenoMax
142k
Activities with `cucurbitacin A`: https://www.ebi.ac.uk/chembl/web_components/explore/activities/STATE_ID:RHxG8uDfrtbmiyaY55ic-w%3D%3D
`cu…
Traffic: 2486 users visited in the last hour
Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by the
version 2.3.6
version 2.3.6