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File format are sets of defined rules to organise a specific type of data. Common file format in bioinformatics include FASTA, FASTQ, SAM, BAM, VCF.

1
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No. At least none that I've heard of and I doubt there ever will be. There is no central repository for formats and each tool, community, field etc have their own. The best you can do is look up the …
answered Jun 2 '17 by terdon
5
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You are looking at the supplementary data of a paper. That seems to have given you a list of features, and some information about those features. Specifically, you seem to have a list of two types of …
answered Oct 31 '19 by terdon
5
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Yes. I haven't found it documented anywhere, but I ran a simple test: $ bcftools view -Oz --no-version foo.vcf > bar.vcf.gz $ md5sum bar.vcf.gz 18a2f494710cf170ba79892936015ba8 bar.vcf.gz $ gunzi …
answered Nov 21 '17 by terdon
3
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Since there doesn't seem to be an easy way to run this in parallel, you could instead break the job into sections. For example, separate each chromosome into its own gtf file, extract the sequences us …
answered Mar 14 '18 by terdon
1
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If we can always assume your fields will be GT:AD:DP:GQ:PL, you can use this relatively simple, brute approach awk script: awk -vOFS="\t" -F"\t" '{ ## just print the header lines if(/^#/){ pr …
answered Jul 3 '19 by terdon
2
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That error is telling you that the script you were running was killed by signal 9, also known as SIGKILL, while executing the command _seqret "$@". This is the way the operating system will kill proce …
answered Mar 10 '18 by terdon