26 releases
0.1.26 | Feb 22, 2024 |
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0.1.25 | Feb 22, 2024 |
0.1.18 | Aug 1, 2023 |
0.1.17 | Jul 28, 2023 |
0.1.4 | Apr 28, 2023 |
#56 in Biology
61KB
1K
SLoC
Stats of gff3 files
Install :
cargo install stats_on_gff3
Crates: https://crates.io/crates/stats_on_gff3
Examples:
stats_on_gff3 --precision 1000 Homo_sapiens.GRCh38.109.chromosome.1.gff3 Homo_sapiens.GRCh38.dna.chromosome.1.fa 2>err
stats_on_gff3 --all Homo_sapiens.GRCh38.109.chromosome.1.gff3 Homo_sapiens.GRCh38.dna.chromosome.1.fa 2>err
zcat Ciona_savignyi.CSAV2.0.dna.toplevel.fa.gz | stats_on_gff3 --precision 100 Ciona_savignyi.CSAV2.0.109.gff3 stdin 2> err
Input data:
A Gff file and its associated fasta file from Ensembl. Fasta sequences should be in uppercase. (for NCBI data, see stats_on_gff3_ncbi https://crates.io/crates/stats_on_gff3_ncbi)
Dependencies
~19MB
~321K SLoC