Stars
Merge and compare structural variants across callers, samples, and platforms. Standardizes BND-heavy output from GRIDSS, SvABA, Sniffles, and more.
Python tool for converting files and office documents to Markdown.
A short tandem repeat (STR) genotyping and analysis toolkit for long reads
LongcallD: joint calling and phasing of small, structural and mosaic variants from long reads
Generic targeted local assembler and genotyper for long-read data
tools for working with Bisulfite Sequencing data while preserving reads intrinsic dependencies
A tool for motif annotation and visualization in tandem repeats.
Fast and exact gap-affine partial order alignment
Tool for plotting sequencing data along genomic coordinates.
A program for the analysis of single cell nanopore long read data
SV analysis of the long-read sequencing data of the 1019 samples of the 1KG-ONT panel
A tool for somatic structural variant calling using long reads
Demultiplexing pooled scRNA-seq data with or without genotype reference
Efficient genotyping bi-allelic SNPs on single cells
Framework for sensitive DE testing (using neighbourhoods)
ClairS: a deep-learning method for long-read tumor–normal pair somatic small variant calling
Copy number caller for long read data including SNV utilization
Volcano plots for differential expression in R. Reads DESeq2, edgeR and limma output directly; highlight genes of interest and compose gene tables with gt.