{"id":23191912,"url":"https://github.com/moold/fxtools","last_synced_at":"2025-06-11T22:32:21.376Z","repository":{"id":225082030,"uuid":"394314932","full_name":"moold/fxTools","owner":"moold","description":"A toolset for processing sequences in FASTA/Q 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fxTools\nA toolset for processing sequences in FASTA/Q formats\n\n## Installation\n\n#### Dependencies\n\n`fxTools` is written in rust, see [here](https://www.rust-lang.org/tools/install) to install `Rust` first.\n\n#### Download and install\n\n```sh\ngit clone git@github.com:moold/fxTools.git\ncd fxTools \u0026\u0026 cargo build --release\n# ./target/release/fxTools\n```\n\n## Usage and Parameters\n```\nfxTools\nA toolset for processing sequences in FASTA/Q formats\n\nUSAGE:\n    fxTools [SUBCOMMAND] [OPTIONS] \u003cinput\u003e...\n\nARGS:\n    \u003cinput\u003e...    input file ...\n\nOPTIONS:\n    -a, --attr \u003cSTR\u003e                   get sequence attributes, id:len:x:qs\n                                         len: sequences length\n                                         x:   count x, case sensitive, where x can be a single base\n                                              or multiple bases (gcGC means count g + c + G + C)\n                                         qs:  quality score, for FASTQ\n    -r, --reform \u003cSTR\u003e                 reform/modify the sequence, accept values:\n                                         lower:    convert sequences into lowercase\n                                         upper:    convert sequences into uppercase\n                                         fq2fa:    converts FASTQ to FASTA\n                                         fa2fq:    converts FASTA to FASTQ\n                                         rev:      reverse the sequence\n                                         com:      complement the sequence\n                                         rc:       reverse and complement the sequence\n                                         lineINT[c]:\n                                                   wrap sequences into INT characters per line,\n                                                   0 for no wrap, c is the alignment mode,\n                                                   color for SNVs and INDELs\n                                         linkINT:  link sequences with INT Ns\n    -p, --split \u003cINT\u003e                  split file with INT subfiles in total\n    -s, --sample \u003cint[G|M|K]|float\u003e    subsample reads, int is the total bases, float is the\n                                       fraction\n    -h, --help                         Print help information\n    -V, --version                      Print version information\n\nSUBCOMMANDS:\n    stat       simple statistics of FASTA/Q files\n    findseq    find subseq positions\n    findgap    find gap(Nn) regions\n    getseq     get sequences or subsequences from a region or file\n    diff       compare sequences between two files\n```","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fmoold%2Ffxtools","html_url":"https://awesome.ecosyste.ms/projects/github.com%2Fmoold%2Ffxtools","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fmoold%2Ffxtools/lists"}