alterlab-pysam
De la autor
Read and write genomic alignment and variant files in Python with pysam (htslib bindings) — SAM/BAM/CRAM alignments, VCF/BCF variants, and FASTA/FASTQ sequences, plus region extraction and per-base coverage/pileup. Use when scripting NGS data-processing pipelines that parse, filter, index, or compute coverage over BAM/CRAM/VCF files. Part of the AlterLab Academic Skills suite.
Instalare
npx skills add AlterLab-IEU/AlterLab-Academic-Skills --skill alterlab-pysam -a claude-code
Se instalează în .claude/skills/alterlab-pysam/ · Fiecare comandă descarcă skill-ul direct de pe GitHub cu utilitarul open source skills.
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De ce 83
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Skill-uri similare
Cele mai apropiate de acesta prin ce fac și când sunt folosite.
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- pysamK-Dense-AI/scientific-agent-skillsProvides Python/HTSlib workflows for genomic files. Used when reading, querying, filtering, or writing SAM/BAM/CRAM, VCF/BCF, FASTA/FASTQ, or tabix data with pysam, including pileup, coverage, indexing, and CRAM references.Știință★ 54.4K
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- alterlab-statsmodelsAlterLab-IEU/AlterLab-Academic-SkillsStatistical modeling in Python with statsmodels — OLS/WLS/GLS, GLM, discrete-choice and count models, mixed models, ARIMA/SARIMAX/VAR, with diagnostics, robust standard errors, and coefficient-level inference. Use when fitting specific model classes for econometrics, time series, or rigorous inference with coefficient tables and confidence intervals, or when updating code for statsmodels 0.15 (result_object named results, rng keyword). For guided statistical test selection with APA reporting prefer alterlab-statistical-analysis. Part of the AlterLab Academic Skills suite.Testare★ 78
- samtools-bam-processingjaechang-hits/SciAgent-SkillsCLI 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.Inginerie★ 382
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