fakit

🦀 a simple program for fasta file manipulation

install

```bash cargo install fakit

or

git clone https://github.com/sharkLoc/fakit.git cd fakit cargo b --release

mv target/release/fakit to anywhere you want

```

usage

```bash fakit -h fakit: a simple program for fasta file manipulation

Usage: fakit [OPTIONS] [INPUT]

Arguments: [INPUT] input fasta[.gz] file

Options: -u, --upper convert base to uppercase -l, --lower convert base to lowercase -w, --length base number of each line, 0 for long single line -f, --fake fasta to fastq and generate fake fastq quality -d, --drop drop sequences with length shorter than int -c, --convert r for reverse seq, m for match seq -s, --summary simple statistics of fasta file -h, --help Print help information -V, --version Print version information ```

exeample

test.fa ```

s1 GAGATCGGAGAAGATAGTTTTAGGGTTTGAGATTGAGAAGAAGATGAAGAAAATTTATGA s2 gactnacntacnncGCACAAACAGGACgatgatgttgatCCGTGTGTGTACGTGAGTTGG s3 GAGAGACTCTTCGTAAGACAGTAAGATTGTGAAAGTCA ```

fakit -u test.ta ```

s1 GAGATCGGAGAAGATAGTTTTAGGGTTTGAGATTGAGAAGAAGATGAAGAAAATTTATGA s2 GACTNACNTACNNCGCACAAACAGGACGATGATGTTGATCCGTGTGTGTACGTGAGTTGG s3 GAGAGACTCTTCGTAAGACAGTAAGATTGTGAAAGTCA <b>`fakit -u test.ta |fakit -w 30`</b> s1 GAGATCGGAGAAGATAGTTTTAGGGTTTGA GATTGAGAAGAAGATGAAGAAAATTTATGA s2 GACTNACNTACNNCGCACAAACAGGACGAT GATGTTGATCCGTGTGTGTACGTGAGTTGG s3 GAGAGACTCTTCGTAAGACAGTAAGATTGT GAAAGTCA <b>`fakit -u test.ta |fakit -w 0 |fakit -l`</b> s1 gagatcggagaagatagttttagggtttgagattgagaagaagatgaagaaaatttatga s2 gactnacntacnncgcacaaacaggacgatgatgttgatccgtgtgtgtacgtgagttgg s3 gagagactcttcgtaagacagtaagattgtgaaagtca <b>`fakit -u test.ta |fakit -d 50`</b> s1 GAGATCGGAGAAGATAGTTTTAGGGTTTGAGATTGAGAAGAAGATGAAGAAAATTTATGA s2 GACTNACNTACNNCGCACAAACAGGACGATGATGTTGATCCGTGTGTGTACGTGAGTTGG <b>`fakit -c r test.ta `</b> s1 AGTATTTAAAAGAAGTAGAAGAAGAGTTAGAGTTTGGGATTTTGATAGAAGAGGCTAGAG s2 GGTTGAGTGCATGTGTGTGCCtagttgtagtagCAGGACAAACACGcnncatncantcag s3 ACTGAAAGTGTTAGAATGACAGAATGCTTCTCAGAGAG <b>`fakit -s test.ta `</b> id baseA baseT baseG baseC baseN GCRate seq_Len s1 24 16 19 1 0 0.33 60 s2 14 14 17 15 0 0.53 60 s3 14 9 10 5 0 0.39 38 <b>`fakit -f E test.ta `</b> @s1 GAGATCGGAGAAGATAGTTTTAGGGTTTGAGATTGAGAAGAAGATGAAGAAAATTTATGA + EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE @s2 gactnacntacnncGCACAAACAGGACgatgatgttgatCCGTGTGTGTACGTGAGTTGG + EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE @s3 GAGAGACTCTTCGTAAGACAGTAAGATTGTGAAAGTCA + EEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEEE ```

* any bugs please report issues *💖