chitrita Goto Github PK

rca

R package for robust clustering of single cell RNA sequencing data

reinforcement-learning

Implementation of Reinforcement Learning Algorithms. Python, OpenAI Gym, Tensorflow. Exercises and Solutions to accompany Sutton's Book and David Silver's course.

repo-2017

Python codes in Machine Learning, NLP, Deep Learning and Reinforcement Learning

ribosome-binding-site-calculator-v1.0

The Ribosome Binding Site (RBS) Calculator can predict the translation initiation rate of a protein coding sequence in bacteria and design synthetic RBS sequences to rationally control the translation initiation rate. It is used to design synthetic biological systems.

rna-seq-tsne

The art of using t-SNE for single-cell transcriptomics

rna_seq_protocol_oz

This repository contains a protocol to analyse RNA-seq data, focusing on alternative splicing & polyadenylation, authored by Oliver Ziff. The contents are based on multiple resources including the RNAseq worksheet; Biostars handbook; Data Camp; Coursera; and most importantly the experience of established experts in RNAseq analysis within my lab. The protocol uses a combination of bash unix commmand line and R scripts.

salislabcode

Models, design algorithms, and other software related to Salis lab publications

saver

Single-cell RNA-seq Gene Expression Recovery

sc-rna-seq-pipeline

sc3

A tool for the unsupervised clustering of cells from single cell RNA-Seq experiments

sc3-paper-figures

Scripts to recreate figures from the SC3 paper

scalable_analytics

Public collaboration of Scalable Single Cell Analytics

scale

Allele-Specific Expression by Single-Cell RNA Sequencing

scanpy

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

scdd

R package to identify genes with differential distributions in single-cell RNA-seq

scenic

SCENIC is an R package to infer Gene Regulatory Networks and cell types from single-cell RNA-seq data.

scg_lib_structs

Collections of library structure and sequence of popular single cell genomic methods

scimpute

Accurate and robust imputation of scRNA-seq data

sclvm

scLVM is a modelling framework for single-cell RNA-seq data that can be used to dissect the observed heterogeneity into different sources, thereby allowing for the correction of confounding sources of variation.

scnorm

Normalization for single cell RNA-seq data

scns-toolkit

Single cell network synthesis toolkit

scode

SCODE : an efficient regulatory network inference algorithm from single-cell RNA-Seq during differentiation

scorpius

Trajectory inference for single-cell RNA-seq

scrna-seq-datasets

Raw data with annotations

scrna-tools

Table of software for the analysis of single-cell RNA-seq data.

scrna.seq.course

Analysis of single cell RNA-seq data course

scrna.seq.datasets

Collection of public scRNA-Seq datasets used by our group

scrnatb

Single Cell RNA-Seq analysis toolbox for Python

sctda

An object oriented python library for topological data analysis of high-throughput single-cell RNA-seq data

scvae

Deep learning for single-cell transcript counts