Skills with input "BAM files"

archr - Analyze scATAC-seq data with ArchR in R

single-cell ATAC-seq R ArchR epigenomics

★ 98 · Updated 2026-10-01

Runs R-based scATAC-seq workflows including Arrow files, dimensionality reduction, clustering, gene scores, peak calling, motif analysis, chromVAR, footprinting, integration, and trajectories.

⚙ Create Arrow files ⚙ Infer doublets ⚙ Run iterative LSI

pysam - Genomic Data Processing Toolkit

bioinformatics genomics NGS sequencing

★ 399 · Updated 2026-06-15

Read/write SAM/BAM/CRAM alignments, VCF/BCF variants, FASTA/FASTQ sequences for NGS pipelines

⚙ read alignment files ⚙ write alignment files ⚙ fetch genomic regions

pysam - Genomic File Toolkit

bioinformatics genomics NGS alignment

★ 14 · Updated 2026-06-15

Read/write SAM/BAM/CRAM alignments, VCF/BCF variants, FASTA/FASTQ sequences for NGS data

⚙ Open alignment files ⚙ Open variant files ⚙ Open sequence files

pysam - Genomic file processing toolkit

bioinformatics genomics sequencing NGS

★ 55 · Updated 2026-06-15

Read/write genomic files, query regions, calculate coverage for NGS data

⚙ read alignment files ⚙ write alignment files ⚙ read variant files

bio-longread-qc - Long-read sequencing data quality control

bioinformatics long-read sequencing quality control ONT

★ 0 · Updated 2026-03-21

Perform quality control on long-read sequencing data using NanoPlot, NanoStat, and chopper

⚙ read FASTQ files ⚙ read BAM files ⚙ read sequencing summary

bio-longread-qc - Long-read sequencing quality control tool

long-read sequencing quality control nanopore pacbio

★ 2 · Updated 2026-03-21

Quality control for long-read sequencing data using NanoPlot, NanoStat, and chopper

⚙ generate read length distributions ⚙ create quality score plots ⚙ calculate summary statistics