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Recent Replies
Comment: Any good tools for biological annotation of ChIP-seq broadpeak (H3K9me3, H3K27me
by
Marco Pannone
▴
670
I would use `annotatePeaks` to annotate peaks to nearby genes, then use that list of genes as input to an over-representation analysis (ORA…
Comment: Package installation error using Bioconda
by
A_heath
▴
110
Thank you both very much for your help.
I didn't think about using mamba so I will keep this in mind next time, thanks.
For antismash, I ma…
Comment: How to create in silico circulating tumour DNA samples for analysis benchmarking
by
LChart
1.5k
> whereas tumour-derived cfDNA has been shown to have shorter fragments (and a few much longer ones, according to some publications)
I wa…
Comment: Any good tools for biological annotation of ChIP-seq broadpeak (H3K9me3, H3K27me
by
hiroyuki.kato.911
•
0
Hi Matthias,
Thank you for your comments.
Yes, I know annotatePeaks and bedtools intersect.
My questions is not about how to call pe…
Answer: Which conservation score to use to measure conservation of splice sites?
by
BaDoi Phan
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0
There's an updated version of the ENSEMBL GERP score in hg38 coordinates at ftp://ftp.ensembl.org/pub/current_compara/conservation_scores/9…
Comment: marker k-mers
by
Istvan Albert
96k
this account has been suspended for posting multiple very short questions that appear to be computer generated
Comment: How to find rna strand direction before alignment?
by
Juke34
7.4k
That’s pity they didn’t mention our work(GuessmyLT) in their paper.
Comment: Association of allele in population
by
4galaxy77
2.5k
OK well if you only have cases then you cannot calculate an pvalue. Is this for a school project or something?
Comment: hd WGCNA - Preservation statistics (Zsummary & MedianRank)
by
AKypR
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0
Thank you for this clarified answer!
Comment: Ensembl Release 104 and newer GTF files no longer have genes sorted by position
by
dlaehnemann
▴
10
It's a clarification, so that's appreciated.
One suggestion, as this is now a conscious decision: maybe you could add a quick sentence to …
Comment: Association of allele in population
by
Nai
▴
20
No...I have GWAS vcf file only with genotype information
Answer: Does anyone have experience using findtail?
by
benformatics
3.3k
I am sorted of confused by the use of the word *internal priming*. Usually that means that sequence adjacent to homopolymer-tracts of A wit…
Comment: hd WGCNA - Preservation statistics (Zsummary & MedianRank)
by
andres.firrincieli
3.0k
> So if I understand correctly, unlike the Zsummary.pres which measures
> the preservation of modules in the other dataset, the Zsummary.qu…
Comment: consensus sequencing in LTRs
by
ATpoint
66k
Please stop posting these ultra low-effort one-liner questions. This is not what is appreciated in volunteer-driven communities. Put some e…
Comment: transposon clusters
by
GenoMax
123k
Single sentence questions don't show any effort on part of the person posting the question not do they provide full context for the researc…
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