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africa-covid19-genomics

Invite only repo to share code, data and info to reproduce.

ai-science-training-series

appliedgenomeresearch

course about NGS data processing: genomics and transcriptomics

appls

Applied Python Programming for Life Scientists

biobakery_workflows

bioBakery workflows is a collection of workflows and tasks for executing common microbial community analyses using standardized, validated tools and parameters.

bioc2020anno

bioinfo-notebook

🔬 Bioinformatics Notebook. Scripts for bioinformatics pipelines, with quick start guides for programs and video demonstrations.

biostar-handbook

Issue tracker for the Biostar Handbook

cc-3-datamanip

Using tidyr, dplyr and piping for easy and efficient data manipulation

cc_course_stream1

All the course materials for the "Stats from Scratch" stream of our Data Science course

ccmetagen

Microbiome classification pipeline

cheatsheets

Posit Cheat Sheets - Can also be found at https://posit.co/resources/cheatsheets/.

combat-tb.github.io

COMBAT-TB Website

conda

A system-level, binary package and environment manager running on all major operating systems and platforms.

corral

covid19_ms1

COVID19_MS1_code

czid-dag

Please see https://github.com/chanzuckerberg/czid-workflows for the latest version of CZ ID workflows.

deeparg

A deep learning based approach to predict Antibiotic Resistance Genes (ARGs) from metagenomes. It provides two models,deepARG-SS and deepARG-LS.

divnet

diversity estimation under ecological networks

enrichomics

Functional enrichment analysis of high-throughput omics data

eukdetect

eukheist

eukrep_pipeline

genome_workshop

Data and scripts for Genome Annotation

ggbiplot

A biplot based on ggplot2

gutprotist-search

search for gut protists without genomes in short read metagenomics data

icipe-hpc-environment

This repo contains Environment Modules used in Icipe's research computing infrastructure.

illumina-utils

A library and collection of scripts to work with Illumina paired-end data (for CASAVA 1.7+ pipeline).

intro-to-shell-flipped

introductory-course-metagenomics-data-analysis-curriculum