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Recent Replies
Comment: Installing an updated R version (>=4.0) using conda
by
Chih
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0
Thanks a lot !!! I have been working on it for 2 weeks.
Comment: Which companies/institutions allow you to use their servers for bioinformatics a
by
kristina.mahan
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150
I'm in the US and it doesn't seem like those European academic clouds will let me have an account. It looks like the RNAseq tools have been…
Comment: Which companies/institutions allow you to use their servers for bioinformatics a
by
kristina.mahan
▴
150
I work at a biotech company and not a university. We work with some consultants from academia. I can see if that qualifies as "affiliated t…
Comment: A check over my code using Limma DE, starting from normalized data
by
JACKY
▴
10
The data is not normally distributed. I tried `ggqqplot(log_TPM$sample)`, on many samples that I chose randomley, and got something like th…
Comment: Making heatmap for pseudotime with clusters annotation
by
Ram
36k
Look into ComplexHeatmap - that's probably what that paper has used. You'll need to create a `Heatmap()` object with the expression data an…
Comment: qPCR Assay plot
by
Maria17
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0
Dear Trivas,
it is the dCt, i want to compare pPCR output of two different protocol ,the samples are the same.
basically comparing the num…
Comment: Making heatmap for pseudotime with clusters annotation
by
hamid sta
▴
10
Sorry i was not precise . It's on R .
i'm actually trying to plot this heatmap
![enter image description here][1]
In that heatmap ,…
Comment: NGS data analysis
by
Ram
36k
Hire, contract or collaborate with a bioinformatician. You'll spend a ton more time learning how to do basic stuff and a lot less time doin…
Answer: Change rows of two different files into columns and paste them alternatively in
by
Pierre Lindenbaum
145k
`datamash transpose` , `sort` and `join`
Answer: Change rows of two different files into columns and paste them alternatively in
by
cpad0112
20k
input:
$ tail -n+1 *.txt
==> file1.txt <==
gene1 2 4
gene2 3 5
gene14 9 10
==> file12.txt <==
gene2 3 5
…
Answer: ERROR MESSAGE: Fasta index file
by
Azhar Jameel
•
0
we have the same error; The specified fasta file doesn't exist,
renamed according to the given suggestion above, and run multiple times s…
Comment: Unable to access error while running docker container for GATK
by
Sara
▴
200
@genomax this is how I do it which works fine for other tools:
set +u; env - PATH="$PATH" SINGULARITYENV_TMP="$TMP" SINGULARITY_TMPDI…
Comment: Unable to access error while running docker container for GATK
by
GenoMax
115k
Can you clarify how you are doing the following?
> command to enter the container environment works fine
Comment: Unable to access error while running docker container for GATK
by
Sara
▴
200
@iraun if that was possible I would do it. I have to use container due to the limitations I have on the hpc.
Comment: Why are number of CDS smaller than corresponding genes [M. tb]
by
Alewa
▴
100
@joe - thanks for chiming in. but in my case there were less cds than the genes. or maybe I'm not doing the gene filtering right? :(
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