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Recent Replies
Comment: how to select peaks at not transcribed genes
by
jared.andrews07
9.3k
In that case, wouldn't you consider all peaks to be associated with transcription? Even if your 232 peaks are not associated with genes, th…
Answer: Filter contig fasta file by GC content
by
GenoMax
99k
Try the following.
seqkit fx2tab --name --only-id --gc contigs.fa | awk -F "\t" '{if ($2 < 35) print $1}' | xargs -n 1 sh -c 'seqki…
Comment: R command worked yesterday, but stalls today?
by
dariober
12k
...besides, [wget](https://www.gnu.org/software/wget/manual/wget.html) has a `-c/--continue` option to resume the download of a partial fil…
Comment: how to select peaks at not transcribed genes
by
jared.andrews07
9.3k
What makes you think genes with a peak are transcribed while those without are not? Unless your IP was for Pol2, this is an overly simplist…
Comment: How to combine 2 incomplete GTF
by
rafaelsolersanblas
▴
70
Thank you! I am going to try it :)
Comment: How to combine 2 incomplete GTF
by
GenoMax
99k
Please create a new environment when installing packages. That avoids conflicts.
conda create -c bioconda -n agat agat
conda acti…
Comment: How to combine 2 incomplete GTF
by
rafaelsolersanblas
▴
70
Hi Juke,
I am trying to install it and I can't.
![enter image description here][1]
[1]: /media/images/bc08978b-10f7-4666-b385-57807b…
Comment: comprehensive bacterial phylogenetic tree with edge lengths for all of RefSeq or
by
cmo
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70
I agree with you, Mensur, that the GTDB is arguably more reliable and comprehensive than NCBI. However, due to the relative greater longevi…
Comment: how to select peaks at not transcribed genes
by
Lila M
▴
910
rigth, it is a ChIP seq analysis
Comment: how to select peaks at not transcribed genes
by
ATpoint
48k
Which type data are we talking about? What was the experiment? There are literally no details in this question right now. It the assay meas…
Comment: MASURCA output
by
kilcdincer
▴
10
Thank you. I understood ploidy part.
My genome is supposed to belong to diploid Candida albicans. And genome size of diploid Candida alb…
Answer: How to combine 2 incomplete GTF
by
Juke34
★
5.3k
To give more precision to the @genomax comment:
`agat_sp_compare_annotations.pl` will tell you the differences.
Then you can choose to …
Comment: GSEA for RNA_seq dataset
by
ATpoint
48k
No problem. I am not really familiar with what the GSEA implementation from the Broad institute does. I personally use fgsea from Bioconduc…
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