Linux
Shell and HPC commands used on bioinformatics servers, workstations, and cluster environments.Covers filesystem tools, text processing, compression, process control, NGS CLIs, and Slurm basics.Keep this card nearby when composing reproducible bash workflows.
Showing 1–10 of 100 functions
| Topic | Function | Description | Syntax |
|---|---|---|---|
| Compression | gzip | Compress files with gzip. | gzip -k file.fastq |
| Compression | gunzip | Decompress gzip files. | gunzip -c file.gz > file |
| Compression | zcat | Cat a gzipped file. | zcat file.fastq.gz | head |
| Compression | bzip2 | Compress with bzip2. | bzip2 file |
| Compression | xz | Compress with xz. | xz -k file |
| Compression | tar | Archive files. | tar -czf archive.tgz dir |
| Compression | unzip | Extract zip archives. | unzip archive.zip |
| Files | ls | List directory contents. | ls -lah path |
| Files | sort | Sort lines of text files. | sort -k1,1V file |
| Files | cd | Change directory. | cd /data/project |
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