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Recent Replies
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C: Reading in H5AD File from Human Cell Atlas by
RamRS ♦ 27k
Please add answers only if you're answering the top level question. If not, use `Add Comment` or ...
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A: Reading in H5AD File from Human Cell Atlas by
shohan4me • 0
Were you able to solve the problem? I am still in the dark trying to figure out!
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C: Does BWA MEM understand paired-end suffixes? /2 in a single FASTQ file? by
Istvan Albert ♦♦ 84k
Ah indeed, that was it. All I remember that it drove me nuts when the reads got out of sync and f...
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A: -m option of HTSeq in featureCounts by
Istvan Albert ♦♦ 84k
featureCounts does not implement all the features of htseq-counts. Conceptually the tool works di...
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C: vcf of SV (structural variant): how to retrieve/separate Germline and Somatic SV by
Pierre Lindenbaum ♦ 129k
https://www.biostars.org/p/224702/ https://www.biostars.org/p/78929/#115693 https://www.biostars....
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C: tophat-fusion-post: IndexError: list index out of range by
lieven.sterck ♦ 8.0k
hard to say, some tools/software is less picky than others . if it was working before, what then...
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A: Comparing SPAdes assemblies to each other? by
Istvan Albert ♦♦ 84k
See if using the interactive dot plotter works for your case. I recently discovered this implemen...
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A: BBMap Statistics Evaluation by
Istvan Albert ♦♦ 84k
I don't know what BBMap does specifically, but typically the denominator is the total number of r...
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C: Does BWA MEM understand paired-end suffixes? /2 in a single FASTQ file? by
i.sudbery ♦ 8.1k
Still need to be careful - almost all the gotcha's that apply to writing interleaved also apply t...
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C: Survival time computation by
elb • 180
Thank you very much for your help! I also found a column with "year of death".So, based on: age a...
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A: Does BWA MEM understand paired-end suffixes? /2 in a single FASTQ file? by
i.sudbery ♦ 8.1k
BWA does not understand the `/1` and `/2` suffixes on read names. It can use "interleaved" form...
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A: Extracting Snps with pvalue <5x10-8 from gwas result by
Pierre Lindenbaum ♦ 129k
with the example your provided above, the following awk script works: awk '($4<1E-1) {pr...
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