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Bedtools merge messing chromosome start - end points

bedtools merge bedtools merge genome written 5 weeks ago by nitinra • 0 • updated 5 weeks ago by Jorge Amigo ♦ 12k

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C: hisat2: "(ERR): hisat2-align died with signal 6 (ABRT) "-message by Ad fontes • 140
Sorry, I don't think this is the answer: I am trying to match two sets of reads against the refe...
C: Quallity trimming by phred score, how far is to far? by genomax ♦ 91k
How so? Before filtering all of your reads were 150 bp (FastQC just plots them like that). After ...
C: Downloading HLA typing for human by A • 3.9k
Sorry @ATpoint I have found files of some HLA type named mhcflurry_alleles.txt , netMHCII_...
C: Quallity trimming by phred score, how far is to far? by robert.murphy • 20
Thank you very much. I have just tried a Q30 filtering run and get back some quite weird results ...
C: hisat2: "(ERR): hisat2-align died with signal 6 (ABRT) "-message by Ad fontes • 140
According to https://daehwankimlab.github.io/hisat2/manual/ we should use --rna-strandness F (o...
C: Does trimming RNA-Seq reads affect the differentially expressed genes? by benformatics • 2.0k
When you say transcripts... what do you mean exactly? After aligning the newly trimmed reads the ...
C: hisat2: "(ERR): hisat2-align died with signal 6 (ABRT) "-message by genomax ♦ 91k
Why are you using the option for paired-end reads if you have single-end data?
A: hisat2: "(ERR): hisat2-align died with signal 6 (ABRT) "-message by genomax ♦ 91k
Looks like you don't have the same number of reads in Read 1 and Read 2 file. This can happen if ...
A: hisat2: "(ERR): hisat2-align died with signal 6 (ABRT) "-message by Ad fontes • 140
It is single-read, but even when I specify rna-strandness R I get the same answer. Any help wo...
C: how to convert FASTQ to complementary sequences by genomax ♦ 91k
See: https://www.biostars.org/p/70833/#70834 Are you sure you want complementary sequence? As s...
C: Cross-specie Integration Using Seurat by manishaB • 0
Okay, I got the issue. Thank you so much for the provided direction, it really helped.
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When you perform SVA, the method estimates surrogate variables which explain variance in your dat...

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