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bio-workflows-riboseq-pipeline

Maintainer FreedomIntelligence · Last updated April 1, 2026

Ribo-seq: footprint alignment → periodicity → ORF detection.

OpenClawNanoClawAnalysisReproductionbio-workflows-riboseq-pipeline🧠 bioos extended suitebioos extended bioinformatics suiteribo

Original source

FreedomIntelligence/OpenClaw-Medical-Skills

https://github.com/FreedomIntelligence/OpenClaw-Medical-Skills/tree/main/skills/bio-workflows-riboseq-pipeline

Maintainer: FreedomIntelligence
License: MIT
Last updated: April 1, 2026

Skill Snapshot

Key Details From SKILL.md

2 min

Key Notes

cutadapt -a CTGTAGGCACCATCAAT \ --minimum-length 25 --maximum-length 35 \ -o trimmed.fastq.gz reads.fastq.gz.
bowtie2 -x rRNA_index --un non_rrna.fastq.gz -U trimmed.fastq.gz.

Source Doc

Excerpt From SKILL.md

Align to transcriptome

STAR --genomeDir star_index
--readFilesIn non_rrna.fastq.gz
--readFilesCommand zcat
--outFilterMismatchNmax 2
--alignEndsType EndToEnd
--outSAMtype BAM SortedByCoordinate


## Step 3: P-site Calibration

```python
from plastid import BAMGenomeArray

## Build metagene profile

metagene_generate annotation.gtf ribo.bam metagene_output/

Use cases

Use bio-workflows-riboseq-pipeline for genomics and bioinformatics workflows.
Apply bio-workflows-riboseq-pipeline to sequencing, variant, or omics analysis tasks.