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FastQC — universal quality control tool for high-throughput sequencing data. Performs modular analysis of FASTQ and BAM files, generating per-base quality scores, GC content distribution, adapter cont

2 shared topics • 1 shared operation

IGV (Integrative Genomics Viewer) — high-performance Java desktop application for interactive visualization and exploration of genomic data. Supports BAM/CRAM alignments, VCF variants, BED/GFF annotat

2 shared topics • 1 shared operation

nf-core/atacseq — Nextflow pipeline for ATAC-seq (Assay for Transposase-Accessible Chromatin with sequencing) data analysis. Handles paired- or single-end reads through adapter trimming (Trim Galore),

2 shared topics • 1 shared operation

Peddy — pedigree and sample QC tool for VCF files. Verifies sample sex from X-chromosome heterozygosity, checks relatedness against PED file expectations, predicts ancestry via PCA against 1000 Genome

2 shared topics • 1 shared operation

Qualimap — platform-independent quality control tool for next-generation sequencing alignment data. Provides BAM QC (coverage, insert size, GC content, mapping quality), RNA-seq QC (gene body coverage

2 shared topics • 1 shared operation