NanoPlot

HiCUP (Hi-C User Pipeline) is a modular pipeline for mapping and performing quality control on Hi-C sequencing data. Processes paired-end FASTQ reads through four stages: truncation at ligation juncti

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

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

Sickle — sliding-window quality trimming tool for short-read Illumina FASTQ data. Trims low-quality bases from 3' and 5' ends using a windowed adaptive algorithm. Supports paired-end (pe) and single-e

2 shared topics • 2 shared operations

Trimmomatic — flexible, multithreaded read trimming tool for Illumina sequence data. Performs adapter removal (palindrome and simple modes), quality trimming (sliding window, leading/trailing), hard c

2 shared topics • 2 shared operations