danwiththeplan

nteract

📘 The interactive computing suite for you! ✨

rnaseq

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

canu

A single molecule sequence assembler for genomes large and small.

knitr-examples

A collection of knitr examples

microbiome_helper

A repository of bioinformatic scripts, SOPs, and tutorials for analyzing microbiome data.

DGE_workshop

Punchkeyboard

Punchkeyboard is an open-source keyboard for virtual reality, enhanced with autocomplete and next word prediction functionality for a swift typing experience.

kaiju

Fast taxonomic classification of metagenomic sequencing reads using a protein reference database

sortmerna

SortMeRNA: next-generation sequence filtering and alignment tool

barrnap

:microscope: :leo: Bacterial ribosomal RNA predictor

nullarbor

:floppy_disk: :page_with_curl: "Reads to report" for public health and clinical microbiology

varsim

VarSim: A high-fidelity simulation validation framework for high-throughput genome sequencing with cancer applications

LoReAn

Long Reads Annotation pipeline

bacass

Simple bacterial assembly and annotation pipeline

asub

A unified array job submitter for LSF, SGE/UGE and Slurm

deepsig

DeepSig - Predictor of signal peptides in proteins based on deep learning

NanoMethViz

protk

Proteomics Toolkit in Ruby

effectR

An R package to call oomycete effectors

dmd-interpreter

DMD Open-access Variant Explorer (DOVE): A tool to aggregate clinically relevant information related to variants in the DMD gene.

kodoja

Kodoja: identifying viruses from plant RNA sequencing data

Gene_Regulatory_Networks_Simulation_Workshop

EffectorP-2.0

Improved prediction of fungal effector proteins from secretomes with EffectorP 2.0

braker-docker

Docker container for running braker gene finder

SigUNet

q2-diversity

direct-PCA-for-sequences

hgvsParseR

An HGVS string parser for the R programming language

eDNA-pipeline

eDNA pipeline

ComMA

Community Matrix Analysis