klkoser

biobakery_workflows

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

humann

HUMAnN is the next generation of HUMAnN 1.0 (HMP Unified Metabolic Analysis Network).

MetaPhlAn

MetaPhlAn is a computational tool for profiling the composition of microbial communities from metagenomic shotgun sequencing data

hackathon-normalize-it

Hackathon Normalize It Team May 2024

hyena-dna

Official implementation for HyenaDNA, a long-range genomic foundation model built with Hyena

gffcompare

classify, merge, tracking and annotation of GFF files by comparing to a reference annotation GFF

pseudoR

stringtie

Transcript assembly and quantification for RNA-Seq

demuxlet

Genetic multiplexing of barcoded single cell RNA-seq

rigraph

igraph R package

tidyverse

Easily install and load packages from the tidyverse

HelloGitHub

:octocat: 分享 GitHub 上有趣、入门级的开源项目。Share interesting, entry-level open source projects on GitHub.

sleepwalk

Exploring dimension-reduced embeddings

knn_sleepwalk

A wrapper around the sleepwalk package that allows for interactive knn visualizations of an embedding.

clusterProfiler

:bar_chart: A universal enrichment tool for interpreting omics data

patchwork

The Composer of ggplots

r-color-palettes

Comprehensive list of color palettes available in R ❤️🧡💛💚💙💜

FriendsDontLetFriends

Friends don't let friends make certain types of data visualization - What are they and why are they bad.

tmux

tmux source code

Roary

Rapid large-scale prokaryote pan genome analysis

panaroo

An updated pipeline for pangenome investigation

FeatureSelection

Feature Selection in R using glmnet-lasso, xgboost and ranger

ggstatsplot

Enhancing {ggplot2} plots with statistical analysis 📊📣

ggthemes

Additional themes, scales, and geoms for ggplot2

ggpubr

'ggplot2' Based Publication Ready Plots

ggthemr

Themes for ggplot2.

sparkxgb

R interface for XGBoost on Spark

SHAPforxgboost

SHAP (SHapley Additive exPlnation) visualization for 'XGBoost' in 'R'

supervised-ML-case-studies-course

Supervised machine learning case studies in R! 💫 A free interactive tidymodels course

ggfortify

Define fortify and autoplot functions to allow ggplot2 to handle some popular R packages.