PlasmoDB

ENCODE tools provide access to the Encyclopedia of DNA Elements data, including genomic functional elements, ChIP-seq, RNA-seq, and ATAC-seq data. Facilitates data retrieval, query, and analysis for e

2 shared topics • 2 shared operations

WARP (WDL Analysis Research Pipelines) — Broad Institute's cloud-optimized collection of genomics pipelines written in WDL (Workflow Description Language). Covers whole-genome sequencing (WGS), whole-

2 shared topics • 2 shared operations

GenomicRanges — Bioconductor R package for representing, manipulating, and analyzing genomic intervals (GRanges, GRangesList). Provides operations for finding overlaps (findOverlaps, subsetByOverlaps)

2 shared topics • 2 shared operations

Strelka2 — fast and accurate small variant caller for germline and somatic analysis. Detects SNVs and indels (up to ~49 bp) from mapped paired-end sequencing reads with tiered haplotype modeling, adap

2 shared topics • 2 shared operations

gffread -- GFF/GTF utility for filtering, converting, and extracting sequences from genome annotation files. Converts between GFF3 and GTF formats, extracts transcript (FASTA) and protein sequences fr

2 shared topics • 1 shared operation