A versatile tool to perform pile-up analysis on Hi-C data in .cool format.

A lua package for designing DNA.

A simple tool to perform the calculation and visualization of the average chromatin A/B compartment.

Get the consensus sequences from SAM (and BAM) files, ignoring the reference

Base frequencies for BAM files

Pipeline for gene candidate discovery based on mutagenesis. Featured in gene cloning research published in Nature (DOIs: 10.1038/s41467-020-14937-2, 10.1038/s41467-021-23738-0, 10.1038/s41477-021-00971-5), Molecular Plant (DOI: 10.1016/j.molp.2021.05.010) and New Phytologist (DOI: 10.1111/nph.17075).

Variant caller from pileup notation / samtools alignment

Parse pileup files, generate consensus fasta and calculate heteroplasmy per nucleotide

Convert output from Samtools pileup into a matrix.

PYTHIA files for simulating pp collisions at LHC energies with pileup

📦 Pile up cardboard boxes 📦