bio-ribo-seq-ribosome-periodicity
Validate Ribo-seq data quality by checking 3-nucleotide periodicity and calculating P-site offsets. Use when assessing library quality or determining read offsets for downstream analysis.
npx skills add majiayu000/claude-skill-registry --skill ribosome-periodicity --agent claude-code
Same command for any agent — swap --agent for codex, cursor, copilot.
Weekly change comes from our own snapshots, not the repository page — it measures attention, not adoption.
# Ribosome Periodicity Analysis ## 3-Nucleotide Periodicity Ribosomes move 3 nucleotides per codon. Good Ribo-seq data shows strong periodicity: ```python from plastid import BAMGenomeArray, FivePrimeMapFactory, GenomicSegment import numpy as np import matplotlib.pyplot as plt # Load aligned reads alignments = BAMGenomeArray('riboseq.bam', mapping=FivePrimeMapFactory()) # Get metagene around start codons # Expect strong 3-nt periodicity ``` ## Calculate P-site Offset ```python from plastid import metagene_analysis # The P-site offset varies by read length # Typically 12-15 nt from 5' end for 28-30 nt reads def determine_psite_offset(bam_path, annotation_file): '''Determine optimal P-site offset from metagene analysis''' from plastid import GTF2_TranscriptAssembler, BAMGenomeArray # Load annotations transcripts = list(GTF2_TranscriptAssembler(annotation_file)) # Load reads alignments = BAMGenomeArray(bam_path, mapping=FivePrimeMapFactory()) # Metagene around start codons # Peak should align with start codon position metagene_data = metagene_analysis( transcripts, alignments, upstream=50, downstream=100 ) return metagene_data ``` ## Metagene Plots ```python def plot_metagene(metagene
- 3-Nucleotide Periodicity
- Calculate P-site Offset
- Metagene Plots
- Assess by Read Length
- P-site Offset Table
- Validate with RiboCode
- Related Skills
RiboCode includes periodicity analysis RiboCode_onestep \ Check output for periodicity plots
What does the bio-ribo-seq-ribosome-periodicity skill do?
Validate Ribo-seq data quality by checking 3-nucleotide periodicity and calculating P-site offsets. Use when assessing library quality or determining read offsets for downstream analysis.
How do I install it?
Run `npx skills add majiayu000/claude-skill-registry --skill ribosome-periodicity --agent claude-code` — it drops the skill into your project so the agent can pick it up. Swap the --agent value for codex, cursor or copilot if you use one of those.
Where does this skill come from?
From majiayu000/claude-skill-registry, a repository with 534 stars. We read it straight from the repository tree rather than a submitted listing, so what you see here is what is actually published.
Is a popular skill a good skill?
Not necessarily. Stars measure attention, not adoption — a repository can trend for a week and be abandoned. That is why we show the weekly change from our own snapshots next to the total, instead of a single flattering number.