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bgi_vs_illumina_benchmark

This repository contains code related to the publication "Comparative performance of the BGI and Illumina sequencing technology for single-cell RNA-sequencing" by Senabouth et al.

cel-seq-pipeline

cnmf

Code and example data for funning Consensus Non-negative Matrix Factorization on single-cell RNA-Seq data

compclub-sklearn

Intro to sklearn for Comp Club

daqface

A high-level python interface for a number of common NI DAQmx hardware tasks.

featureselectionga

Feature Selection using Genetic Algorithm (DEAP Framework)

full-force-demos

Simulations illustrating the results of full-FORCE.

init-scripts

jackstraw

implements jackstraw methods in python test for associations between variables and systematic modes of variation discovered in the data.

kb_python

A wrapper for the kallisto | bustools workflow for single-cell RNA-seq pre-processing

odor_scripts

pulseboy

GUI tool for controlling NI pulse trains

pybasicbayes

pygenometracks

python module to plot beautiful and highly customizable genome browser tracks

pyhsmm

pypulse

A set of tools for generating complex pulse trains for digital inputs, largely for use in driving high speed valves / PWM.

sba-ppp-loan-data

SBA Paycheck Protection Program Loan Level Data from https://home.treasury.gov/policy-issues/cares-act/assistance-for-small-businesses/sba-paycheck-protection-program-loan-level-data

scanpy

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

scrublet

Detect doublets in single-cell RNA-seq data

starfish

starfish: unified pipelines for image-based transcriptomics

suite2p

cell detection in calcium imaging recordings

umi-tools

Tools for handling Unique Molecular Identifiers in NGS data sets