by
chasem
▴
10
That is good to know that it isn’t just my set of reads…still concerning, though.
by
chasem
▴
10
I was not expecting this — not sure what to make of it yet.
That said, I did end up reading the STAR documentation more closely. This tim…
by
Gordon Smyth
★
3.0k
Thanks for the tutorial Kevin. A minor comment, one never needs to do this `expr <- project.bgcorrect.norm.filt.mean$E`. Just pass the whol…
by
biogamer.31
•
0
I have no a table but I know which code belong to specific bacterial species. In the example, the next codes belong to specific label:
…
by
Kevin Blighe
76k
‘99% of the time’, this works ‘all the time’:
fastq-dump –split-files SRR13310323
It will download anything there on the record. I t…
by
matteolifilipe
▴
10
A bit late but might help anyone.
We use PERMANOVA to compare centroids of groups of samples, usually represented through PCoA or NMDS. Th…
by
GenoMax
105k
How about using a [dedicated workflow][1] that is meant to this type of analysis. STAR is not the best tool for aligning small RNA’s with a…
by
minesrebollo
•
0
Hi Claire, I had to do the same thing with rice’s EPO. Rice was also the reference species for the alignment. By plotting some trees with i…
by
Divon
▴
10
You can use my Genozip tool:
“`
genozip myfile.fq.gz –fast
genocat –grep-w TTAGGC myfile.fq.genozip # output all reads with the barcod…
by
rpolicastro
5.5k
How do you know that `X543.7` is `C` for example? Do you have some sort of table that has this information?
by
Mike Smith
★
1.7k
Yes, you should start a new thread on the Bioconductor support site with the code that generates the error and the output of `sessionInfo()`
by
biogamer.31
•
0
Thank you Ram. I have already updated the question. Please, I will be very grateful by your awesome help.
by
jared.andrews07
★
11k
> In general Windows WSL is almost on par with Linux – the usability problems come from not being able to execute programs with graphics ba…
by
ATpoint
52k
> Do you think we should normalize to total cell number in bulk RNAseq?
No, I do not see how this a) would be possible and b) would make s…
by
cwwong13
•
0
I totally agree with you on doing the qPCR validation thing, but sadly, it seems still a common practice among experimental biologists.
I…
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