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BISulfite-seq CUI Toolkit (BISCUIT) is a utility for analyzing sodium bisulfite conversion-based DNA methylation/modification data. It was written to perform alignment, DNA methylation and mutation calling, and allele specific methylation from bisulfite sequencing data.

SVDSS is a method for structural variations discovery from accurate long reads (e.g PacBio HiFi), based on the notion of sample-specific strings (SFS, or simply specific strings).

BioPhi is an open-source antibody design platform. It features methods for automated antibody humanization (Sapiens), humanness evaluation (OASis) and an interface for computer-assisted antibody sequence design.

(Burrows-Wheeler Aligner) a software package for mapping low-divergent sequences against a large reference genome, such as the human genome. It consists of three algorithms: BWA-backtrack, BWA-SW and BWA-MEM.

Explore distal transcriptional regulatory elements (TREs) identified from nascent-transcript sequencing.

SARS-CoV-2 genome clade assignment, mutation calling, and sequence quality checks

fast and accurate de novo assembler for single molecule sequencing reads.

SARS-CoV-2 genome clade assignment, mutation calling, and sequence quality checks

fast and accurate de novo assembler for single molecule sequencing reads.

The CapCruncher package is designed to process Capture-C, Tri-C and Tiled-C data. Unlike other pipelines that are designed to process Hi-C or Capture-HiC data, the filtering steps in CapCruncher are specifically optimized for these datasets.