Giters
Taylor Reiter (taylorreiter)

taylorreiter

Geek Repo

82

followers

29

following

57

stars

Company:Arcadia Science

Location:Philadelphia, PA

Home Page:taylorreiter.github.io

Twitter:@ReiterTaylor

Github PK Tool:Github PK Tool

Organizations
Arcadia-Science
dib-lab

Taylor Reiter's starred repositories

git-flight-rules

Flight rules for git

License:CC-BY-SA-4.0Stargazers:41695Issues:655Issues:73

fastp

An ultra-fast all-in-one FASTQ preprocessor (QC/adapters/trimming/filtering/splitting/merging...)

Language:C++License:MITStargazers:1839Issues:50Issues:512

csvtk

A cross-platform, efficient and practical CSV/TSV toolkit in Golang

Language:GoLicense:MITStargazers:986Issues:25Issues:258

ncbi-genome-download

Scripts to download genomes from the NCBI FTP servers

Language:PythonLicense:Apache-2.0Stargazers:915Issues:35Issues:141

RainCloudPlots

Code and tutorials to visualise your data that is both beautiful *and* statistically valid

Language:HTMLLicense:MITStargazers:811Issues:24Issues:50

salmon

🐟 🍣 🍱 Highly-accurate & wicked fast transcript-level quantification from RNA-seq reads using selective alignment

Language:C++License:GPL-3.0Stargazers:758Issues:39Issues:815

bakta

Rapid & standardized annotation of bacterial genomes, MAGs & plasmids

Language:PythonLicense:GPL-3.0Stargazers:419Issues:13Issues:211

taxonkit

A Practical and Efficient NCBI Taxonomy Toolkit, also supports creating NCBI-style taxdump files for custom taxonomies like GTDB/ICTV

Language:GoLicense:MITStargazers:362Issues:9Issues:93

pysradb

Package for fetching metadata and downloading data from SRA/ENA/GEO

Language:PythonLicense:BSD-3-ClauseStargazers:301Issues:13Issues:131

plotsr

Tool to plot synteny and structural rearrangements between genomes

Language:PythonLicense:MITStargazers:268Issues:5Issues:79

modules

Repository to host tool-specific module files for the Nextflow DSL2 community!

Language:NextflowLicense:MITStargazers:265Issues:145Issues:1657

BandageNG

a Bioinformatics Application for Navigating De novo Assembly Graphs Easily

Language:C++License:GPL-3.0Stargazers:110Issues:11Issues:90

angus

Materials for Analyzing Next-Generation Sequencing (ANGUS) course.

Language:HTMLLicense:CC0-1.0Stargazers:104Issues:27Issues:69

ntCard

Estimating k-mer coverage histogram of genomics data

Language:C++License:MITStargazers:76Issues:19Issues:41

kofam_scan

CLI tool to annotate genes with KOfam

Language:RubyLicense:MITStargazers:67Issues:4Issues:36

paladin

Protein Alignment and Detection Interface

Language:CLicense:MITStargazers:58Issues:11Issues:41

traitar3

From genomes to phenotypes: Traitar3, the microbial trait analyzer (for Python3)

Language:PythonLicense:GPL-3.0Stargazers:22Issues:1Issues:5

Tutorial

A tutorial for Metagenome-Atlas

Language:MAXScriptLicense:GPL-3.0Stargazers:20Issues:3Issues:8

aggiedown

An R Markdown template using the bookdown package for preparing a PhD thesis at the University of California Davis

Language:TeXLicense:NOASSERTIONStargazers:16Issues:6Issues:14

mastiff

Language:RustLicense:NOASSERTIONStargazers:16Issues:2Issues:0

2018-cicese-metatranscriptomics

repo for cicese metatranscriptomics workshop, nov 2018

Language:RStargazers:14Issues:5Issues:2

groves

Tools for analyzing trees

Language:RStargazers:14Issues:5Issues:0

2022-search-sra-with-mastiff

Tools and utilities for making use of mastiff

Language:Jupyter NotebookLicense:BSD-3-ClauseStargazers:12Issues:1Issues:3

TidyMultiqc

Converts 'MultiQC' Reports into Tidy Data Frames

Language:RLicense:GPL-3.0Stargazers:11Issues:2Issues:8

arcadia-computational-training

Computational training materials developed for or delivered at Arcadia

Language:MakefileLicense:MITStargazers:8Issues:4Issues:13

ggbeeswarm2

Column scatter / beeswarm-style plots in ggplot2

Language:RStargazers:7Issues:1Issues:3

2020-11-02-greyhound

Language:RustStargazers:3Issues:0Issues:0

2023-dietary-plants

Bioinformatically barcode the diet from stool metagenome samples

Language:Standard MLLicense:GPL-3.0Stargazers:2Issues:1Issues:8

2020-dist-compare

Language:Jupyter NotebookStargazers:1Issues:0Issues:0

2022-database-covers

Language:PythonStargazers:1Issues:2Issues:6