2.2 pip¶

Purpose¶

Install the released Python package into an existing Python environment.

Requirements¶

Linux/POSIX environment
Python >= 3.12

Create environment¶

conda create -n ribo python=3.12
conda activate ribo

Install¶

pip install riboparser

Install external dependencies¶

pip only installs the RiboParser package itself. The external tools required by the full workflow (e.g. Bowtie, STAR, SAMtools, RSEM) must be installed separately, for example via conda:

conda install bowtie samtools cutadapt star bedtools subread rsem gffread sra-tools \
  ucsc-genepredtogtf ucsc-gtftogenepred ucsc-gff3togenepred ucsc-bedgraphtobigwig ucsc-bedsort \
  -c bioconda

Update¶

pip install -U riboparser