csbioazim Goto Github PK

2016-icml-gromov-wasserstein

Gabriel Peyré, Marco Cuturi, Justin Solomon, Gromov-Wasserstein Averaging of Kernel and Distance Matrices, Proc. of ICML 2016.

alzheimers_parkinsons

Collaboration with Montine, Chang, and Montgomery labs on Alzheimers / Parkinson's ATAC-seq analysis

atac-seq

Basic workflow for ATAC-seq analysis

chipseq_pipeline

AQUAS TF and histone ChIP-seq pipeline

chromasc-r

A method for testing differential gene set enrichment along pseudotime trajectories

cicero

coding-interview-university

A complete computer science study plan to become a software engineer.

csbioazim.github.io

Github Pages template for academic personal websites, forked from mmistakes/minimal-mistakes

deep-learning-for-clustering-in-bioinformatics

Deep Learning-based Clustering Approaches for Bioinformatics

deeplearning

Deep learning reading group

deeplearninggroup

dsde-deep-learning

DSDE Deep Learning Club

fujiplot

:mount_fuji: Fuji plot—a circos representation of multiple GWAS results— :mount_fuji:

isoregnet

linearmtl

Linear Multi-Task Learning with R.

magic

MAGIC (Markov Affinity-based Graph Imputation of Cells), is a method for imputing missing values restoring structure of large biological datasets.

mpal-single-cell-2019

Analysis Repository Code for MPAL Paper 2019

multipcsf

An implementation of the Multi-PCSF algorithm described in http://dx.doi.org/10.1142/9789814583220_0005

neun

oana_code

Generally useful code for my projects

pcsf

pot

Python Optimal Transport library

psychip_snakemake

scanpy

Single-Cell Analysis in Python. Scales to >1M cells.

scasat

Scasat is a single cell ATAC-seq preprocessing and analysis pipeline

scatac-benchmarking

Benchmarking computational single cell ATAC-seq methods

scrna-seq_notes

A list of scRNA-seq analysis tools

singe

Gene regulatory network reconstruction from pseudotemporal single-cell gene expression data

single-cell-pseudotime

An overview of algorithms for estimating pseudotime in single-cell RNA-seq data

single-cell-tutorial

Single cell current best practices tutorial case study for the paper:Luecken and Theis, "Current best practices in single-cell RNA-seq analysis: a tutorial"