Transcript assembly and quantification for RNA-Seq

genome reduction sequences quality control

eDNA metabarcoding pipeline

RNA sequencing analysis pipeline using STAR, RSEM, HISAT2 or Salmon with gene/isoform counts and extensive quality control.

Specifications of SAM/BAM and related high-throughput sequencing file formats

C++ library and cmdline tools for parsing and manipulating VCF files with python and zig bindings

Tools for working with amplicon sequencing data

Software for painlessly estimating average nucleotide diversity within and between populations

Collection of various scripts

RADseq workflow using STACKS

identifying and reducing bias in hierarchical GSI

Website for MarineOmics RCN-ECS. Hosts pages for panelist series and recommended practices for non-model genomics.

A short analysis of population statistics given specific inputs

An R package for fast and efficient visualizing of GWAS results using Q-Q and Manhattan plots directly from PLINK output files.

Python library to handle Gene Ontology (GO) terms

🌶 An R package for genetic analysis of populations with mixed (clonal/sexual) reproduction

Database interface for storing genotype, phenotype, and pedigree information

RADseq Data Exploration, Manipulation and Visualization using R

Population assignment analysis using R

Genome-wide Efficient Mixed Model Association

efficient sampling for close-kin mark recapture power estimation

Automatically exported from code.google.com/p/figtree

Toolkit for processing sequences in FASTA/Q formats

Where's my Heterozygotes at? Observations on genotyping Accuracy

Transfer coordinates across genomes

A set of tools written in Perl and C++ for working with VCF files, such as those generated by the 1000 Genomes Project.

An R package of map layers for British Columbia

view and locate recombinations positions using pedigree data

AlphaImpute2: pedigree- and population-based genotype imputation