HiC-Pro

Use when working with the ARTIC viral amplicon sequencing command-line pipeline for Oxford Nanopore data. Covers documented `artic minion`, `artic guppyplex`, and `artic_get_models` workflows for prim

2 shared topics • 2 shared operations

distiller-nf — Nextflow pipeline for reproducible Hi-C data processing. Aligns Hi-C FASTQ reads with BWA, parses alignments into pairs with pairtools, filters PCR duplicates, and aggregates contacts i

2 shared topics • 2 shared operations

Fastq Screen — Perl tool for screening FASTQ sequencing reads against multiple reference genomes to detect sample contamination. Maps reads to user-defined genome databases (human, mouse, E. coli, Phi

2 shared topics • 2 shared operations

Mashtree — rapid distance-based phylogenetic tree construction from genome assemblies using MinHash (Mash) distances. Creates neighbor-joining trees from FASTA assemblies, FASTQ reads, or GenBank file

2 shared topics • 2 shared operations

Tools for manipulating next-generation sequencing data stored in SAM/BAM/CRAM format, including sorting, indexing, and format conversion.

2 shared topics • 2 shared operations