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Recent Replies
Comment: HEXplorer: Scanning splice site sequence surroundings for splice enhancing/repre
by
PedroBarbosa
▴
20
Hi,
Thanks for the tool, but the link you provided does not work. Was the tool discontinued ?
Best,
Pedro
Answer: Fasta headers column spilt or selection
by
young_bioinformatician
▴
170
awk '{print $3}' input > output
Answer: Fasta headers column spilt or selection
by
antmantras
▴
20
cat myfile.fasta | grep ">" | awk -F " " '{print $3}'
This will print the file, pass to the grep command where headers (starting wit…
Answer: SEURAT : loading via h5 file and applying min.cells and min.features
by
ZheFrench
▴
480
Ok `Read10X_h5` did the trick.
fileh5 <- glue ("{outdir}/filtered_feature_bc_matrix/filtered_feature_bc_matrix.h5")
seurat.obje…
Comment: variant analysis using Freebayes
by
young_bioinformatician
▴
170
We know that false positive issue happens in variant caling tools. You can read benchmarking papers about this. Nevertheless, I would consi…
Comment: EDAseq, edgeR libraries cannot be installed in M2 mac
by
Gordon Smyth
★
5.0k
Yes, that's right. But the point of the bioc-devel post that I linked to is that, starting from today, you shouldn't need to install the in…
Comment: Beta-matrix. Differential methylation analysis
by
Basti
▴
790
Your question is very vague because everything depends on your data. Where does it come from ? How was it processed ? From which platform a…
Comment: Difference between (~group) and (~0+group) in design matrix edgeR
by
Basti
▴
790
I suggest you to read this guide to creating design matrices : https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7873980/.
Comment: Changing the format of a column in a file
by
munaj86
▴
30
Thanks for this. I have a script that do this job but when I run it it gives me an error so I decided to look for a simple way rather than …
Comment: EDAseq, edgeR libraries cannot be installed in M2 mac
by
Sakib Salam
•
0
The problem is resolved by installing the intel version R. Thanks!
Comment: How to code phased vcf genotypes into numeric sequence
by
caredevil
•
0
Thank you for your reply.
I think my question is pretty self explanatory and there is no need for further information.
But as requested…
Comment: Tools to merge overlapping paired-end reads
by
Asan Emirsale
•
0
Take a look to this article: "Optimizing Information in Next-Generation-Sequencing (NGS) Reads for Improving De Novo Genome Assembly"
Liu …
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