Next Generation Sequencing Python Packages

pyfastaq

Python3 scripts to manipulate FASTA and FASTQ files

4K 73 21

ariba

Antimicrobial Resistance Identification By Assembly

829 187 60

circlator

A tool to circularize genome assemblies

551 258 57

amptk

AMPtk: Amplicon ToolKit for NGS data (formally UFITS)

410 39 13

ngsderive

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

389 11 0

pm4ngs

Project Manager for NGS data analysis

388 31 10

iva

de novo virus assembler of Illumina paired reads

272 58 18

ngsphy

NGSphy: phylogenomic simulation of next-generation sequencing data

227 14 6

wdldoc

Create WDL documentation using Markdown.

222 29 5

sigalign

A Similarity-Guided Alignment Algorithm

208 31 4

massgenotyping

Python package for microsatellite genotyping from highly multiplexed amplicon sequencing data

145 8 1

albatradis

Comparative TraDIS analysis

109 9 4

yasim

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

93 2 1

seroba

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

85 27 20

divide-seq

Divide NGS data by barcode and primer

84 4 0

mock-fastq-generator

Generates randomly generated fastQ files from a template and upstream sequence.

80 2 0

cloops2

Enhanced and elegant flexible peak/loop/domain -calling and analysis tool for 1D/3D genomic data.

69 55 13

icallsv

A Framework to call Structural Variants from NGS based datasets

45 22 10