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Recent Replies
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C: Subread and featurecounts read index and annotation once for all by
bharata1803 • 390
Usually I use salmon, but this time the fastq is colorspace. So, I need to use aligner that suppo...
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C: Subread and featurecounts read index and annotation once for all by
WouterDeCoster ♦ 35k
Not what you are asking for, but if saving time is what you want (and you have a well-annotated o...
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C: GATK 4 Mutect2 gives too much low depth variants by
WouterDeCoster ♦ 35k
Well, isn't that what you would expect, that you find variants in a tumor with a low to very low ...
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finswimmer ♦ 8.0k
Hello https://www.biostars.org/u/50889/ , was the same `reference.fa`used for alignment? This d...
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C: GATK DP filter for multiple samples by
finswimmer ♦ 8.0k
`$ bcftools view -i 'FORMAT/DP>10' input.vcf > output.vcf` Or do I misunderstood something?...
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C: Problem in using TCGAvisualize_meanMethylation function by
1303823432 • 0
Ok, thank you. I will try.
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C: How to rectify mirdeep.pl error? by
finswimmer ♦ 8.0k
Hello, how does `/home/shanthi/Desktop/Nivya/miRBase/mature_human_miRNA1.fa` look at line 5309? ...
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C: How to remove special characters from text files? by
nivya.james2016 • 0
I shall do it. Thank You.
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Vijay Lakhujani ♦ 3.4k
Hello https://www.biostars.org/u/51028/, Please use the formatting bar (especially the `code` op...
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hansong798 • 0
I added figure. It is a part of my annotation data.
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1499265453 • 0
thank you , i forgot to run ./setup.sh
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C: How to export rld (rlog) or vsd values from DESeq2? by
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Worked it out! Thank you, WouterDeCoster
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