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pacbio

pilon

Pilon is an automated genome assembly improvement and variant detection tool

ppspcp

A Plant Presence/absence Variants Scanner and Pan-genome Construction Pipeline

predco

prediction of meiotic crossovers in plants

pseudohaploid

Create a pseudohaploid assembly from a partially resolved diploid assembly

psi-sigma

PSI-Sigma

pygenprop

A python library for programmatic usage of EBI InterPro Genome Properties.

pyranges

(beta) Performant Pythonic GenomicRanges

pyvcf

A Variant Call Format reader for Python.

qqman

An R package for creating Q-Q and manhattan plots from GWAS results

r_seq

R scripts for NGS data analysis

ra

Assembler for raw de novo genome assembly of long uncorrected reads.

remote-code-runner

A remote code running service.

ribbon

A genome browser that shows long reads and complex variants better

rice_genome_assembly

riceexome

rideogram

rnaseq_pipeline

rtn

sgvfinder

smrtsv2

Structural variant caller

snpsplit

Allele-specific alignment sorting

splitreader

Split-read pipeline for the identification of non-reference TE insertions with TSDs

splitthreader

Explore rearrangements and copy-number amplifications in a cancer genome

survivor

Toolset for SV simulation, comparison and filtering

svmu

A program to call variants from genome alignment

svtools

Tools for processing and analyzing structural variants.

synnet-pipeline

Workflow for Building Microsynteny Networks

tbtools

GUI/CommandLine Tool Box for biologistists to utilize NGS data.

teflon

TEFLoN uses paired-end illumina sequence data to discover and genotype transposable elements present in your samples.