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awesome

Awesome resources on Bioinformatics, data science, machine learning, programming language (Python, Golang, R, Perl) and miscellaneous stuff.

awesome-python

A curated list of awesome Python frameworks, libraries, software and resources

awesome-scala

A community driven list of useful Scala libraries, frameworks and software.

awesome-single-cell

List of software packages for single-cell data analysis, including RNA-seq, ATAC-seq, etc.

bcbio-nextgen

Validated, scalable, community developed variant calling, RNA-seq and small RNA analysis

crawl-academic-activities-of-nwafu-website

based on scrapy

datools

flashfry

FlashFry: The rapid CRISPR characterization tool

genepairs

indrops

Pipeline for processing inDrops sequencing data

ivdd_ana

lintimat

Lineage Tracing by Integrating Mutation and Transcriptomic data

machinelearninginaction

Source Code for the book: Machine Learning in Action published by Manning

macs

MACS -- Model-based Analysis of ChIP-Seq

maul

A single or dual barcode splitter for sequencing data

mentohust

接续HustMoon开发的Mentohust，继续更新

mpaperlee.github.io

ngs-workflows

NGS-workflows based on snakemake

nyspider

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presto

Distributed SQL query engine for big data

pythondatasciencehandbook

Jupyter Notebooks for the Python Data Science Handbook

pytudes

Python programs to practice or demonstrate skills.

sc_gestalt

GESTALT processing pipeline for barcodes captured with single-cell RNA sequencing

scala-workflow

Boilerplate-free syntax for effectful computations

scanpy

Single-Cell Analysis in Python. Scales to very high cell numbers.

scrna.seq.course

Analysis of single cell RNA-seq data course

secondaryanalysiscellranger

Shiny app for that follows the vignette for the cellrangerRkit PBMC secondary analysis using R

tbtools

GUI/CommandLine Tool Box for biologistists to utilize NGS data.

umi-tools

Tools for handling Unique Molecular Identifiers in NGS data sets