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Annotate CLIP-seq binding sites to genomic features including 3'UTR, 5'UTR, CDS, introns, and ncRNAs. Use when characterizing where an RBP binds in transcripts.
기본적으로 소스를 먼저 확인하는 Prompt가 선택됩니다. 직접 명령으로 전환하거나 로컬 사본을 다운로드할 수도 있습니다.
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npx skills add https://github.com/mdbabumiamssm/LLMs-Universal-Life-Science-and-Clinical-Skills- --skill bio-clip-seq-binding-site-annotation명령은 한 줄로 유지됩니다. 복사하기 전에 가로로 스크롤해 전체 내용을 확인하세요.
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SOC 직업 분류 기준
SKILL.md 표시 중
| name | bio-clip-seq-binding-site-annotation |
| description | Annotate CLIP-seq binding sites to genomic features including 3'UTR, 5'UTR, CDS, introns, and ncRNAs. Use when characterizing where an RBP binds in transcripts. |
| tool_type | mixed |
| primary_tool | ChIPseeker |
library(ChIPseeker)
library(TxDb.Hsapiens.UCSC.hg38.knownGene)
txdb <- TxDb.Hsapiens.UCSC.hg38.knownGene
peaks <- readPeakFile('peaks.bed')
anno <- annotatePeak(peaks, TxDb = txdb)
plotAnnoPie(anno)
# Annotate to UTRs
bedtools intersect -a peaks.bed -b 3utr.bed -wa -wb > peaks_3utr.bed
import pandas as pd
def annotate_peaks(peaks_bed, annotation_gtf):
'''Annotate peaks to genomic features'''
# Load peaks and annotations
# Intersect and categorize
pass