Search Packages

dysgu

Toolkit for calling structural variants using short or long reads

sequana

Sequana: a set of Snakemake NGS pipelines

jcvi

Python utility libraries on genome assembly, annotation and comparative genomics

exomeflow

Production-quality Whole Exome Sequencing analysis pipeline

igdtools

Tools for converting VCF to IGD files and processing them.

ilus

A lightweight and handy variant calling pipeline generator for whole-genome sequencing (WGS) and whole exom sequencing data (WES) analysis by using GATK and Sentieon. 一个基于 GATK 和 Sentieon 的简易且全面的 WGS/WES 分析流程生成器.

megalodon

Nanopore base calling augmentation.

umierrorcorrect2

Pipeline for UMI error correction and variant calling from amplicon sequencing data

tbpore

Mycobacterium tuberculosis genomic analysis from Nanopore sequencing data

variant-extractor

Deterministic and standard extractor of SNVs, indels and structural variants (SVs) from VCF files.

cerebra

A tool for fast and accurate summarizing of variant calling format (VCF) files

pepper-polish

PEPPER-Margin-DeepVariant

biokevlar

Reference-free variant discovery in large eukaryotic genomes

arvia

ARVIA (Antibiotic Resistance Variant Identifier for Pseudomonas aeruginosa) takes single-end/paired-end reads and/or assemblies to perform exhaustive variant calling of genes related to antibiotic resistance in Pseudomonas aeruginosa.

basevar

BaseVar: A python software for calling variants from ultra low pass WGS data.

snipgenie

command line and desktop tool for microbial variant calling

rmetl

realignment-based Mobile Element insertion detection Tool for Long read