Recent Votes
Recent Locations •
All
Switzerland, just now
Mo I Rana, 1 minute ago
France, 2 minutes ago
Switzerland, 3 minutes ago
India, 4 minutes ago
Hyderabad India, 5 minutes ago
China, 6 minutes ago
Recent Awards •
All
Commentator to
Joe
20k
Teacher to
Pierre Lindenbaum
145k
Popular Question to
DormoD
•
0
Popular Question to
ev97
•
0
Popular Question to
ATpoint
61k
Popular Question to
kristina.mahan
▴
150
Commentator to
h.mon
34k
Recent Replies
Comment: Create a new column by a partial string pattern
by
cpad0112
20k
I think this is xy problem. With example data above and expected output, try the following code:
> df
Column1 Column2 …
Comment: Subset a VCF based on a certain string within VEP/ClinVar annotation
by
Vanish007
▴
20
Thank you, that seemed to do the trick! I'll have to brush up on my regex :)
Comment: ValueError: The alphabet argument is no longer supported
by
Joe
20k
You've left a stray comma. The function may still be expecting an argument to follow.
Comment: Mummer
by
iraun
★
4.3k
Hi! Sorry, I rarely work with bacteria. Doing a quick google search, I found [this GFF3][1] file. If you have the genome, using the gff3 yo…
Comment: DNA gel for Pacbio and Illumina sequencing, please check the gel for me
by
GenoMax
115k
While someone may respond, this forum focuses on bioinformatics topics. This question is more appropriate for SeqAnswers.com or Biology sta…
Answer: BED file from GSEA gene set
by
2138493o
▴
20
I would like to use deeptoolsMatrix to plot ChIP signal within the TSS of my genes of interest; my genes of interest being PRC2 targets. So…
Comment: Read counts an order of magnitude higher on one chromosome
by
ATpoint
61k
Good catch. @OP, did you use bwa (or any local aligner) for alignment?
Answer: Using bcftools isec without stripping meta data and outputting as a VCF
by
Giacomo Rocchetti
▴
50
Well, that's strange. This command should return you the *dir* folder containing the following files:
1. **README.txt**: it simply desc…
Comment: Read counts an order of magnitude higher on one chromosome
by
benformatics
★
2.8k
Check my answer. These are adapters and should be trimmed prior to alignment. Sometimes one round of trimming isn't enough (in the case tha…
Answer: Read counts an order of magnitude higher on one chromosome
by
benformatics
★
2.8k
**Trim your adapters before you do your alignment.**
`ATCGGAAGAGCGTCGTGTAGGGAAAGAGTGT` is the read2 adapter for some types of RAD-seq:
htt…
Comment: Create a new column by a partial string pattern
by
Grace
•
0
Thank you, and sorry for the confusion, I have now added the dataset and the expected output.
Answer: Create a new column by a partial string pattern
by
Grace
•
0
Hi,
I am really sorry about the confusion caused here, I tried to create a subset of the dataset hopefully to make the question more cl…
Answer: ValueError: The alphabet argument is no longer supported
by
Robert
•
0
Thanks, how do I check that?
But I didn't call any Alphabet function
Comment: ValueError: The alphabet argument is no longer supported
by
Robert
•
0
No I am not, please find attached the code.
Traffic: 1608 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