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updated 2 hours ago by
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written 3 hours ago by
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updated 1 hour ago by
Gordon Smyth
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written 8 hours ago by
tryseq
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Tool:
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written 11 hours ago by
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12 hours ago by
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8 hours ago by
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updated 12 hours ago by
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wang-yanfang
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updated 13 hours ago by
GenoMax
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15 hours ago by
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updated 16 hours ago by
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16 hours ago by
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Recent Awards •
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Recent Replies
Comment: ATACseq batch effect coupled with biological effect
by
boaty
▴
150
HI,
PCA will not do the removal thing, it just give you the insight of your data, is it feasible or not?
if in PCA plot, your data separat…
Answer: Problem connecting web in PLINK
by
chrchang523
7.9k
This no longer happens if you upgrade to PLINK 1.9.
Answer: STAR alignment on Windows
by
Gordon Smyth
★
2.5k
As far as I know, STAR doesn't run under Windows 10.
Would you consider another aligner? Rsubread has been compared favorably to STAR in p…
Answer: MrBayes Stepping-stone analysis error: DEBUG ERROR: Log likelihood nan after mov
by
klo
•
0
I should add that I am using MPI version of MrBayes 3.2.6 on Ubuntu
Comment: No SINEs, LINEs, LTR and DNA elements detected by RepeatMasker
by
Shri hari
▴
30
thank you for your kind help
Comment: Low no_Feature value after using STAR for alignment
by
swbarnes2
9.8k
A mismatching gtf is most often the problem, but if they match, then the problem is probably in the library prep itself, and you can't fix …
Answer: How to determine gender by homozygosity (rate?) in X chromosome?
by
okiedokie1208
•
0
Did you figure out those values?
Comment: HISAT2 Genome indexing
by
gglim
▴
40
that's for single-ended data. Try explore the help message on your own server
Comment: HISAT2 Genome indexing
by
gglim
▴
40
Type `hisat2 --help` and check the usage
HISAT2 version 2.0.4 by Daehwan Kim (infphilo@gmail.com, www.ccb.jhu.edu/people/infphilo)
…
Comment: Extracting reads from fastq files with BBMAP?
by
GenoMax
100k
You may need to add `substring=t`. These should work.
Comment: Introducing Clumpify: Create 30% Smaller, Faster Gzipped Fastq Files. And remov
by
simplitia
▴
40
Hm ok thanks. I guess I was expecting a huge duplication issue here, especially since this set of fastq files in particular was quite large…
Comment: Extracting reads from fastq files with BBMAP?
by
simplitia
▴
40
Hi, ok here is how the first few lines look like.
NAME1
K00153:706:H3VMJBBXY:4:1101:12601:1279
K00153:706:H3VMJBBXY:4:1101:25…
Comment: Introducing Clumpify: Create 30% Smaller, Faster Gzipped Fastq Files. And remov
by
GenoMax
100k
Only patterned flowcells have optical duplicates. Is your data from such a flow cell? It is not necessary to have optical duplicates if the…
Comment: Extracting reads from fastq files with BBMAP?
by
GenoMax
100k
What does `names2.txt` look like (show us output of `head -5 names2.txt`)? Remember to remove `@` or `>` identifiers from read names in `na…
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