Agent skill
🏥 Clinical Variant Reporter
Classify germline variants from VCF/BCF files according to the ACMG/AMP 2015 28-criteria evidence framework and
OpenClawHealthcare & Life Sciences
ClawBio
Agent skills
Reusable instructions for compatible AI agents.
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Search resultsAgent skill
Pysam
Genomic file toolkit. Read/write SAM/BAM/CRAM alignments, VCF/BCF variants, FASTA/FASTQ sequences, extract regions, calculate coverage, for NGS data processing pipelines.
ClaudeCodexCursorData & Analytics
Dicklesworthstone1,169
Agent skill
CLIP-seq Preprocessing
Preprocess CLIP-seq reads (eCLIP, iCLIP, iCLIP2, iCLIP3, irCLIP, PAR-CLIP, FLASH) with protocol-specific UMI extraction, adapter trimming, length filtering, and post-alignment PCR-duplicate collapse. Use when raw CLIP FASTQ must be turned into deduplicated, crosslink-preserving BAM input for peak...
ClaudeCodexOpenClawData & Analytics
GPTomics898
Agent skill
Splicing-Specific Quality Control
Assesses RNA-seq data quality specifically for alternative splicing analysis. QC layers include experimental design audit (library prep, read length, depth, replicates), STAR 2-pass cohort-style alignment, junction saturation curves and discovery plateau detection, novel-vs-known junction ratio d...
ClaudeCodexOpenClawData & Analytics
GPTomics898
Agent skill
BAM Statistics
Generate alignment statistics using samtools flagstat, stats, depth, coverage, and mosdepth. Use when assessing alignment quality, calculating coverage, or generating QC reports.
ClaudeCodexOpenClawData & Analytics
GPTomics898
Agent skill
🧬 Variant Annotation
Annotate VCF variants with Ensembl VEP REST, ClinVar significance, gnomAD/population frequency context, and prioritized variant ranking.
OpenClawData & Analytics
Toby Clark
Agent skill
samtools — SAM/BAM/CRAM Alignment Toolkit
CLI toolkit for SAM/BAM/CRAM: sort, index, convert, filter, QC alignments. Core commands: view, sort, index, flagstat, stats, depth, markdup, merge. Required between alignment and variant/peak calling. Use pysam for Python-native BAM access; deeptools for normalized coverage tracks.
OpenClawData & Analytics
jaechang-hits199
Agent skill
Alignment Sorting
Sort alignment files by coordinate or read name using samtools and pysam. Use when preparing BAM files for indexing, variant calling, or paired-end analysis.
ClaudeCodexCursorData & Analytics
David-Li04060
Apache-2.0View resource
Agent skill
🧬 LD 1000G Region Compute
Compute pairwise r² between a lead variant and every variant in a window using the 1000 Genomes Phase 3 GRCh38 reference panel, ancestry-stratified. Use when an agent needs LD coloring for a regional plot or LD pruning around a candidate causal variant. Single client (on-demand region fetch from ...
OpenClawData & Analytics
ClawBio
Agent skill
Pysam
Genomic file toolkit. For reading/writing SAM/BAM/CRAM alignment files, VCF/BCF variant files, FASTA/FASTQ sequences, extracting regions, calculating coverage, suitable for NGS data processing pipelines.
ClaudeCodexOpenClawData & Analytics
aipoch1,124
Agent skill
CLIP-seq Preprocessing
Preprocess CLIP-seq data including adapter trimming, UMI extraction, and PCR duplicate removal. Use when preparing raw CLIP, iCLIP, or eCLIP reads for peak calling.
ClaudeCodexOpenClawData & Analytics
David-Li04060
Apache-2.0View resource
Agent skill
CNV Annotation
Annotate CNVs with genes, pathways, and clinical significance. Use when interpreting CNV calls or identifying affected genes from copy number analysis.
ClaudeCodexOpenClawData & Analytics
David-Li04060
Apache-2.0View resource
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