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Recent Replies
Comment: featureCounts results: low rate of 'Successfully assigned alignments'
by
GenoMax
136k
> I run a blast with the sequences and most of them belongs to globin.
Globin reads shown in your FastQC report are not going to add up to…
Comment: featureCounts results: low rate of 'Successfully assigned alignments'
by
kvn95ss
▴
20
Almost all your samples have the over represented sequence, you can blast the top 10 recurring sequences and see what it could be.
Comment: How to deeply sequence long inserts
by
GenoMax
136k
Linked read kits have not been offered by 10x genomics from last 3-4 years so that is not an option.
Illumina now offers a long read tech…
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
▴
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
•
0
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 …
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