HiCUP

BAMtools — C++ API and command-line toolkit for reading, writing, sorting, indexing, filtering, merging, splitting, and converting BAM alignment files. Provides JSON-based filter expressions, multi-fo

2 shared topics • 2 shared operations

NanoPlot — visualization and quality-control tool for Oxford Nanopore long-read sequencing data. Generates read length histograms, quality distribution plots, cumulative yield curves, and alignment id

2 shared topics • 2 shared operations

PRINSEQ++ — high-performance C++ tool for quality control and preprocessing of FASTQ sequencing reads. Filters and trims reads by quality score, length, GC content, sequence complexity (DUST/entropy),

2 shared topics • 2 shared operations

Pychopper — Nanopore direct cDNA read preprocessing tool that identifies, orients, and trims full-length reads using primer detection (pHMM or alignment). Rescues fused reads by dynamic programming, e

2 shared topics • 2 shared operations

PycoQC — Python tool for Oxford Nanopore sequencing QC that parses basecaller summary files (sequencing_summary.txt from Guppy, Dorado, or MinKNOW) and BAM alignment files to generate interactive HTML

2 shared topics • 2 shared operations