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16s-rdna-dada2-pipeline

dada2 Nextflow pipeline

16s_quick_qc

Just a quick QC test running fastqc and multiqc

16srrna-hex-tutorial

16S rRNA upstream and dowstream analysis tutorial on the UCT Hex cluster.

2018-09-10-jax

crispr-mageck-nf

Analyze CRISPR and shRNA functional genetic screening data

dada2docker

Docker build instructions for DADA2 and related functionality

emirge

EMIRGE reconstructs full length ribosomal genes from short read sequencing data.

emirge_nextflow

A Nextflow implementation of EMIRGE to run samples in parallel

fastq_qc

fastQC and bbduk adapter removal, trimming filtering

genotoolbox

A box of genomics tools

h3abionet16s

H3ABioNet 16S rDNA diverstity analysis package

h3abionet_16s

Course material for H3ABioNet's 16S downstream module IBT online 16S course

h3abionet_r

Course material for H3ABioNet's intro to R module IBT online 16S course

h3ameta

H3ABioNet Metagenomics Workflow

https-carpentries.github.io-idm_r_course-

idm_r_course

peer_assessment1

Reproducible research assessment 1

plasmidseeker

A k-mer based program for the identification of known plasmids from whole-genome sequencing reads

praise

Praise useRs when they have done something good, or when they just need it

r-ecology-lesson

:notebook: Data Carpentry R lessons on ecology.

repdata_peerassessment1

Peer Assessment 1 for Reproducible Research

reproducibleglm-step4

rnaseq

RNA sequencing analysis pipeline using STAR or HISAT2, with gene counts and quality control

tychus

uct-srst2

MLST using srst2, implemented in Nextflow

yamp

YAMP: Yet Another Metagenomic Pipeline