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10x-scatac-2019

Publication Page for Satpathy*, Granja* et al 2019

2019_strunz

Reproducibility repo accompanying Angelidis et al. "Longitudinal single cell transcriptomics reveals Krt8+ alveolar epithelial progenitors in lung regeneration"

adv-r

Advanced R: a book

advanced-shiny

Shiny tips & tricks for improving your apps and solving common problems

ampumi

Toolkit for the design and analysis of amplicon sequencing experiments utilizing unique molecular identifiers (UMIs)

atac-pipe

Analysis pipeline for ATAC-seq Data

atac-seq-pipeline

ENCODE ATAC-seq pipeline

atac_mito_sc

single cell ATACseq pipeline

awesome-10x-genomics

List of tools and resources related to the 10x Genomics GEMCode/Chromium system

awesome-single-cell

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

bioinformatics

Bioinformatics Workflows

bpipe-pipelines

Basic bpipe pipeline stages and pipelines for RNA/DNAseq analysis.

bpipes

bioinformatic pipelines

c9-python-getting-started

Sample code for Channel 9 Python for Beginners course

chip-seq-analysis

ChIP-seq analysis notes from Ming Tang

clinc

coursera-ml-py

Python programming assignments for Machine Learning by Prof. Andrew Ng in Coursera

courseraml

I took Andrew Ng's Machine Learning course on Coursera and did the homework assigments... but, on my own in python because I love jupyter notebooks!

crispr_recorders_sims

This repository will contain the scripts from the work "Is it possible to reconstruct an accurate cell lineage using CRISPR recorders?"

crispresso2

Analysis of deep sequencing data for rapid and intuitive interpretation of genome editing experiments

custom_carlin

dropseqrunner

Pipeline for processing single-cell RNA-seq data (drop-seq)

eoulsan

A pipeline and a framework for NGS analysis (RNA-Seq and soon Chip-Seq)

excelerate-scrnaseq

Single RNA-seq data analysis with R (Finland, May, 2019)

gfwlist

The one and only one gfwlist here

ggplot2

An implementation of the Grammar of Graphics in R

lab-website-template

An easy-to-use, flexible website template for labs!

longread_umi

markdown_photo

mastering-shiny

Mastering Shiny: a book