fqgrep
| Crates.io | fqgrep |
| lib.rs | fqgrep |
| version | 1.0.2 |
| source | src |
| created_at | 2022-07-30 16:45:39.785213 |
| updated_at | 2023-01-25 23:48:27.826935 |
| description | Search a pair of fastq files for reads that match a given ref or alt sequence |
| homepage | https://github.com/fulcrumgenomics/fqgrep |
| repository | https://github.com/fulcrumgenomics/fqgrep |
| max_upload_size | |
| id | 635633 |
| size | 111,311 |
Nils Homer (nh13)
documentation
https://docs.rs/fqgrep
README
fqgrep
Grep for FASTQ files.
Search a pair of fastq files for reads that match a given ref or alt sequence.
Install
From bioconda
conda install -c bioconda fqgrep
From Source
git clone ... && cd fqgrep
cargo install --path .
Usage
fqgrep -r 'GACGAGATTA' -a 'GACGTGATTA' --r1-fastq /data/testR1.fastq.gz --r2-fastq /data/testR2.fastq.gz -o ./test_out -t 28
Help
See the following for usage:
fqgrep -h