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Yixf-Self / exome-coverage-multi.sh
Created December 27, 2018 02:26 — forked from stephenturner/exome-coverage-multi.sh
run bedtools coverage on multiple files using GNU parallel
# Set up to run in GNU parallel.
find *bam | parallel 'bedtools coverage -hist -abam {} -b target_regions.bed | grep ^all > {}.hist.all.txt'
# What this actually runs:
bedtools coverage -hist -abam samp.01.bam -b target_regions.bed | grep ^all > samp.01.bam.hist.all.txt
bedtools coverage -hist -abam samp.02.bam -b target_regions.bed | grep ^all > samp.02.bam.hist.all.txt
bedtools coverage -hist -abam samp.03.bam -b target_regions.bed | grep ^all > samp.03.bam.hist.all.txt
bedtools coverage -hist -abam samp.05.bam -b target_regions.bed | grep ^all > samp.05.bam.hist.all.txt
bedtools coverage -hist -abam samp.06.bam -b target_regions.bed | grep ^all > samp.06.bam.hist.all.txt
bedtools coverage -hist -abam samp.10.bam -b target_regions.bed | grep ^all > samp.10.bam.hist.all.txt
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Yixf-Self / markdown-for-slide-decks.md
Created October 26, 2019 05:03 — forked from johnloy/markdown-for-slide-decks.md
List of markdown presentation tools
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Yixf-Self / gist:a4c8c2b127789919901443c1537860ff
Created January 2, 2020 04:49 — forked from bessarabov/gist:674ea13c77fc8128f24b5e3f53b7f094
One-liner to generate data shown in post 'At what time of day does famous programmers work?' — https://ivan.bessarabov.com/blog/famous-programmers-work-time
git log --author="Linus Torvalds" --date=iso | perl -nalE 'if (/^Date:\s+[\d-]{10}\s(\d{2})/) { say $1+0 }' | sort | uniq -c|perl -MList::Util=max -nalE '$h{$F[1]} = $F[0]; }{ $m = max values %h; foreach (0..23) { $h{$_} = 0 if not exists $h{$_} } foreach (sort {$a <=> $b } keys %h) { say sprintf "%02d - %4d %s", $_, $h{$_}, "*"x ($h{$_} / $m * 50); }'