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I'm not sure whether this is actually a bug in Zulip/Linux or the Nvidia version 560 drivers (with both the "NVIDIA driver metapackage from nvidia-driver-560" and the "NVIDIA driver (open kernel) meta…
snazy updated
2 months ago
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Hello,
I've been comparing Salmon (v 0.8.2) counts with those of traditional STAR/featureCounts and found one bizarre example. The unique aligned counts and the Salmon counts (rounded) for my 3 set…
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It seems that the genotype likelihood calculation used by HaplotypeCaller ends up double-counting fragment evidence when the variant is covered by both reads in a read pair. For a homozygous call, thi…
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Hello,
Thank you for setting up this repo! I was wondering if this data has been published yet and if so what paper we can cite to use this data?
Cheers,
Richard
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Rather major stuff! as discovered by @Marlies1993
`bwa mem` yields empty alignments for sequences of 25bp ...
apparently it isn't designed for 25bp, and something like `bwa aln` should be used inste…
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```
Will probably need to use raw base qualities to estimate these mapping score
differences. (Using re-calibrated errors would be not quite correct, and
require too much re-processing.)
As a first…
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Hi Alex,
I have read a few issues that had the similar problem, but still couldn't solve mine following the recommended methods.
I have 30 samples and all of them had uniquely mapped reads% at aro…
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Hello,
I am using STAR 2.7.10b
my genome generate command is -
STAR --runMode genomeGenerate
--genomeDir /athena/wenlab/scratch/pra4003/LIP_ESCs/esc-2il-p15/genome_index
--genomeFastaFile…
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There are a number of [WebKit bug reports related to SVG](https://bugs.webkit.org/buglist.cgi?bug_status=UNCONFIRMED&bug_status=NEW&bug_status=ASSIGNED&bug_status=REOPENED&bug_status=RESOLVED&bug_stat…
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Hello to everyone.
I've been trying to use cutadapt for a few weeks in order to **trim primers from amplicon sequences**. And I have found the following issue: if a deletion happens to appear just …