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Recent Replies
Comment: Viral genes not showing up in combined mouse+virus alignment
by
GenoMax
136k
Try taking out the additional header lines from the combined GTF file. `NC_005089.1` lines should be immediately followed by `NC_001846.1` …
Comment: Plotting a pvalue threshold for an FDR corrected pvalue <.05 when thats not pres
by
Nitin Narwade
★
1.5k
Hmmmmm, okay.
In this case I could think of another workaround, instead of drawing line/marks, you can add another modality to your plot, …
Comment: featureCounts results: low rate of 'Successfully assigned alignments'
by
Hamtaro
▴
10
I added the fastQC. What do you think of the possible cause I have proposed?
Comment: Problem in installing 'magick' R package
by
Jean-Karim Heriche
26k
This isn't a bioinformatics question. What do you mean by "install all the dependencies"? Did you read the error message? It's telling you …
Answer: Problem in installing 'magick' R package
by
DBScan
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200
Have you read the error message? it tells you to try installing the Magick++ library:
```
Try installing:
deb: libmagick++-dev (Debian, …
Answer: FVA on Sybil
by
Thomas
•
0
The first half of this vector should be your minimal fluxes per reaction and the second half your maximal fluxes per reaction. Thus this ve…
Comment: AttributeError: module 'collections' has no attribute 'Hashable'
by
jiyoung
▴
20
Currently I am experiencing the same problem. Have you solved this?
Comment: Help doing differential expression analysis -experimental design and gProfiler T
by
rajabolacuan
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Good Information Sir
Comment: Viral genes not showing up in combined mouse+virus alignment
by
cook.675
▴
200
Hello I was curious to follow up and wonder if anyone knew why the viral genes are not showing up in the count matrix? I can't seem to solv…
Comment: Discrepancy in total number of bases in trimmed read1 and read2 files after BBDu
by
CTLong
▴
10
That makes sense. Thanks for the reminder.
Comment: bwa mem hangs after a few thousand reads
by
GenoMax
136k
Then you probably are best served by talking with your local sys admins to see where the issue may be.
Comment: Discrepancy in total number of bases in trimmed read1 and read2 files after BBDu
by
GenoMax
136k
> even if tpe and tbo are trailing after adapter and quality trimming
Priority/order of operations in coded in the program. Brian will be …
Comment: bwa mem hangs after a few thousand reads
by
cee28
•
0
Actually, I originally did both of those things that you suggested. My original command at the top of the post was submitted to our cluster…
Comment: Discrepancy in total number of bases in trimmed read1 and read2 files after BBDu
by
CTLong
▴
10
The number of bases is still different even if `tpe` and `tbo` are trailing after adapter and quality trimming. So far for the RNA-seq proj…
Comment: Discrepancy in total number of bases in trimmed read1 and read2 files after BBDu
by
GenoMax
136k
No there should not be much impact unless one of the reads has become substantially short compared to its mate. Strictly speaking you don't…
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