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written 2 days ago by
dishasharma35 • 0
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2 days ago by
genomax ♦ 74k
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214
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written 5 weeks ago by
sg197 • 10
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5 weeks ago by
27atcggcta27 • 130
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written 3.4 years ago by
Obi Griffith ♦ 18k
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5 months ago by
abio • 0
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written 18 months ago by
Nicolas Rosewick ♦ 8.3k
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18 months ago by
toralmanvar • 820
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584
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written 19 months ago by
Pin.Bioinf • 260
• updated
18 months ago by
Biostar ♦♦ 20
1
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739
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written 21 months ago by
gokce.ouz • 50
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21 months ago by
Chris Miller ♦ 21k
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written 2.2 years ago by
Leite • 850
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2.2 years ago by
Michael Dondrup ♦ 46k
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2.4k
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written 4.8 years ago by
Abdul Rafay Khan • 1.1k
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2.4 years ago by
chromosomegun • 260
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2.2k
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3
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written 5.8 years ago by
Zhenyu Zhang • 260
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2.5 years ago by
Fabio Marroni • 2.4k
3
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1.5k
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1
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2
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1
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917
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1
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written 3.4 years ago by
Sama • 60
• updated
3.4 years ago by
natasha.sernova • 3.6k
13
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6
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12k
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8 follow
6
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12
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3
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7.7k
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written 4.1 years ago by
SmallChess • 500
• updated
4.1 years ago by
Alex Reynolds ♦ 29k
6
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2
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5.6k
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2
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written 5.8 years ago by
jack • 450
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4.8 years ago by
cankutcubuk • 170
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1
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written 4.9 years ago by
Nicolas Rosewick ♦ 8.3k
• updated
4.9 years ago by
Zev.Kronenberg ♦ 11k
12
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5
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6.9k
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12 follow
5
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written 5.6 years ago by
Genetics • 1.5k
• updated
5.2 years ago by
Daniel Standage ♦ 3.9k
3
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1
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1.5k
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1
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written 5.3 years ago by
Nicolas Rosewick ♦ 8.3k
• updated
5.3 years ago by
Alex Reynolds ♦ 29k
5
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0
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3.6k
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0
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written 5.4 years ago by
cpcantalapiedra • 140
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5.3 years ago by
Biostar ♦♦ 20
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Recent Replies
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C: How to interpret Per sequence GC content module in FastQC for RNA-seq data? by
rodd • 80
Thanks, genomax! How can I estimate this? My alignment rate is between 75-80% for all samples, an...
-
C: Big difference in estimated duplicate reads between forward and reverse of paire by
Eric Lim • 1.6k
They're relatively older dataset from HiSeq 2000. While patterned flowcells tend to generate more...
-
C: Big difference in estimated duplicate reads between forward and reverse of paire by
genomax ♦ 74k
Are these from patterned flowcells (Hiseq 4000/NovaSeq)?
-
C: GATK quality recalibration to get recalibrated BAM files before SNP calling by
someler • 0
I'd like to continue this conversation via email, if possible. Can I email you?
-
C: samtools sort error by
swbarnes2 ♦ 6.9k
`-o final output to stdout` looks like exactly what is happening. I used that ancient version fo...
-
C: GATK quality recalibration to get recalibrated BAM files before SNP calling by
Nicolas Rosewick ♦ 8.3k
you don’t have access to an other cluster (your institution maybe has a bigger one ? ). One node ...
-
C: samtools sort error by
JC • 0
Version: 0.1.19-44428cd it looks like -o is the option for this version based on the options ava...
-
C: samtools sort error by
swbarnes2 ♦ 6.9k
What version of samtools are you running? It looks like an older version that wants a ">" ins...
-
C: HOMER HiC interactions by
Gjain ♦ 5.4k
Thanks for the paper and the link. I was not aware of that so that is good to know. I think you...
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C: NCBI GEO: Empty FTP directory! by
genomax ♦ 74k
https://www.biostars.org/u/58131/ : Please email GEO support and let them know. NCBI website so l...
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C: GATK quality recalibration to get recalibrated BAM files before SNP calling by
someler • 0
Yes, for sure, it will definitely run in under a day. My files are averaging ~5-6 hours. I expect...
-
C: GATK quality recalibration to get recalibrated BAM files before SNP calling by
Nicolas Rosewick ♦ 8.3k
An exome file should run under a day for sure (in my case it takes 2-3 hours on my local cluster ...
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