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Swimming bird • 20
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ATpoint ♦ 44k
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Recent Replies
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C: run a tool from python by
zak • 0
os.chdir(my path) \\ cmd = perl + pathBam + path... \\ subprocess.call(cmd, shell=tru...
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C: run a tool from python by
zak • 0
i knew i have to use os.chdir () but i dont know how to apply it. os.chdir (my path) and the lin...
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C: Sequence Duplication Levels and Clumpify by
GenoMax ♦ 94k
You are looking for perfectly matching reads with `subs=0` so this looks like a reasonable result...
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C: Demultiplexing MinION reads by
GenoMax ♦ 94k
https://github.com/rrwick/Porechop#barcode-demultiplexing Scroll down at the link above. Looks l...
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C: run a tool from python by
Joe ♦ 18k
You are right that you need `subprocess` to run the command. You can either express your full pat...
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C: Demultiplexing MinION reads by
jeccy.J • 50
Could you please let me know the running command. I checked the manual it looks like : porechop ...
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A: How Can I Count Snps In My Final Vcf Files by
4galaxy77 • 90
If all your variants in the vcf are SNPS, then a very quick way is to first index and then index ...
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A: Demultiplexing MinION reads by
shelkmike • 320
I use Porechop and I have no problems with it.
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C: Non-coding region of WGS by
FL512 • 0
UPDATE: for someone like me, this is how I downloaded the region of interests. https://www.biosta...
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C: How Can I Count Snps In My Final Vcf Files by
Pierre Lindenbaum ♦ 133k
I'm sorry but this is wrong. > echo "chr1 123 . A C,,G" | awk '{if ($4~/[ATCG]/ &&...
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C: Using Deseq2 for RNA-seq analysis of 4 different groups of cells by
ATpoint ♦ 44k
Are all these cancers from the same study, so is the wetlab processing the same. You can only mea...
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A: How Can I Count Snps In My Final Vcf Files by
dario.galanti92 • 0
Here is a quick way to count biallelic SNPs in vcf.gz files (use cat instead of zcat for uncompre...
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