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Recent Replies
Answer: Extracting only soft/hard clipped reads from a bam file
by
horeyezonr
•
0
Hi
I know it was more than a year, but I'll just leave the answer here maybe it will help someone.
With the modified code of yours, th…
Answer: BBtools bug in reporting the number of substitutions in the console output, it s
by
colindaven
5.7k
You can use a tool like vt peek to summarize variant stats once you have got to a vcf etc.
https://genome.sph.umich.edu/wiki/Vt
Comment: Tools or R / Python packages to perfom ML models
by
ATpoint
78k
How about you define what you actually want to do and which question you want to answer. "ML" is a broad and unspecific term.
Comment: PAML Troubleshooting Help
by
dthorbur
▴
880
The error appears pretty clear, but without supplying your input it's hard to tell. Do you have a sequence called `KR568314` in your alignm…
Answer: How I add new organism "Beauveria bassiana (strain ARSEF 2860)" in ClueGo plug-i
by
Scooter
▴
180
I think you'll need to reach out to the ClueGO authors. They are typically very responsive.
-- scooter
Answer: Gene Ontology enrichment with BINGO and ClueGO
by
Scooter
▴
180
Hi David,
Looks to me like ClueGO is your best bet, although it may not do exactly what you want. If you look under "Statistical Option…
Answer: String App in Cytoscape
by
Scooter
▴
180
Greetings,
It's not clear to me what happened here. I added the top 5 terms in your screen shot, and got a reasonable network. I also …
Comment: R script in docker
by
mrashad
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70
Thank you for your answer, it helps me to solve this error.
Answer: BBtools bug in reporting the number of substitutions in the console output, it s
by
harold.smith.tarheel
★
4.9k
The rates are for the variants that were called (not total bases). If you add up the percentages you get 100%; if you add up the counts it …
Comment: Tools or R / Python packages to perfom ML models
by
sil_bioinfo
▴
30
I would like to train ML models without using datasets with images. Specifically, I would like to use transcriptomic data. Is it still poss…
Answer: Tools or R / Python packages to perfom ML models
by
Michael
53k
How about TensorFlow? https://www.tensorflow.org/overview You can run the examples directly in Colab.
This short introduction uses Ke…
Comment: In what case there are RR reads but no LL reads when detect inversions using IGV
by
Istvan Albert
99k
you should visualize the image as pairs (view-as-pairs) the image you show is not quite right, it is also important to note what gets color…
Comment: Tools or R / Python packages to perfom ML models
by
sil_bioinfo
▴
30
Hi, I'm more comfortable with R right now. I found the R package "mlr3", I don't know if you know of any others. I would appreciate it if y…
Comment: HTseq reports missing attribute name
by
Istvan Albert
99k
sounds like your genome file is not quite correct, you need to make sure it is in FASTA format all the way through, perhaps get it from a r…
Comment: Can you help me to download list of miRNA from a SRA under a bioproject ?
by
ATpoint
78k
I it was available then you would see entries there. Still, be aware that this is raw sequencing data, so it's not just a list of miRNAs. C…
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