standage

tag

Genome annotation data analysis and management implemented in pure Python

genhub

Explore eukaryotic genome composition and organization with iLoci

kmer-ology

cli-tutorial

Tutorial on "Designing command-line interfaces (CLIs) for scientific software" intended for scientists with beginner-level skills in programming and UNIX/Linux.

standage.github.io

The internet home of Daniel S. Standage

perly-kmers-2018-12-18

Demo for teaching git/Github

arioc-troubleshoot

bakta

Rapid & standardized annotation of bacterial genomes, MAGs & plasmids

contra

dept

Differential Expression Permutation Testing

die_roll_dists

genomics-workshop

HAWK

Hitting associations with k-mers

iLoci_Lai2020

Procedures and data for the iLoci study described in Lai et al. (2020)

InSilicoSeq

:rocket: A sequencing simulator

khmer

In-memory nucleotide sequence k-mer counting, filtering, graph traversal and more

Liftoff

An accurate GFF3/GTF lift over pipeline

Mash

Fast genome and metagenome distance estimation using MinHash

minhash-demo

mRNAmarkup

Evaluation and annotation of assembled transcripts

mysqlbinder

perly-kmers

Demo for teaching git/Github

pytest-issue-4404

referenceseeker

Rapid determination of appropriate reference genomes.

shell_tricks_workshop_2020-01-31

snakemake_tutorial_2019-04-24

snakemod

umngqusho

with-capsys-example

pytest-dev/pytest issue #5197

wrangling-genomics