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#gff3 #bioinformatics #fasta

app stats_on_gff3_ncbi

Calculate statistics such as CDS GC3 ratio, intron GC ratio, flanking gene region GC ratio, first intron length, number of introns, CpG ratio, etc

by Simon Penel

29 releases

0.1.52 Mar 21, 2024
0.1.51 Mar 13, 2024
0.1.41 Feb 28, 2024

#58 in Biology

Download history 324/week @ 2024-02-11 315/week @ 2024-02-18 497/week @ 2024-02-25 630/week @ 2024-03-03 459/week @ 2024-03-10 196/week @ 2024-03-17 496/week @ 2024-03-24 33/week @ 2024-03-31

1,210 downloads per month

CECILL-2.1

69KB
1K SLoC

Stats of gff3 files

Install :

cargo install stats_on_gff3_ncbi

Crates: https://crates.io/crates/stats_on_gff3_ncbi

Examples:

stats_on_gff3_ncbi --precision 1000 example_ncbi.gff3 example_ncbi.fa 2>err

zcat example_ncbi.fa.gz | stats_on_gff3_ncbi --precision 100 example_ncbi.gff3 stdin 2> err

For Ensembl data, see https://crates.io/crates/stats_on_gff3

Dependencies

~18MB
~326K SLoC