Next Generation Sequencing Python Packages

splicecraft

In-Terminal Plasmid Design Workbench

pyfastaq

Python3 scripts to manipulate FASTA and FASTQ files

ariba

ARIBA: Antibiotic Resistance Identification By Assembly

amptk

AMPtk: amplicon tool kit

circlator

A tool to circularize genome assemblies

ngsderive

Forensic analysis tool useful in backwards computing information from next-generation sequencing data.

pm4ngs

Project Manager for NGS data analysis

ngsphy

NGSphy: phylogenomic simulation of next-generation sequencing data

wdldoc

Create WDL documentation using Markdown.

sigalign

A Similarity-Guided Alignment Algorithm

iva

de novo virus assembler of Illumina paired reads

cloops2

Loop-calling and peak-calling for sequencing-based interaction data, including related analysis utilities.

massgenotyping

Python package for microsatellite genotyping from highly multiplexed amplicon sequencing data

albatradis

Comparative TraDIS analysis

divide-seq

Divide amplicon sequences

yasim

Yet Another SIMulator for Alternative Splicing Events and Realistic Gene Expression Profile

seroba

k-mer based Pipeline to identify the Serotype from Illumina NGS reads

icallsv

A Framework to call Structural Variants from NGS based datasets