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abc-enhancer-gene-prediction

Cell type specific enhancer-gene predictions using ABC model (Fulco, Nasser et al, Nature Genetics 2019)

atac-seq2

awesome-deep-learning-single-cell-papers

awesome-single-cell

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

batcheffectremoval2020

benchmark

identity transposon insert methods benchmark

bitfam

BITFAM is a Bayesian approach and platform to infer transcription factor activities within individual cells using single cell RNA-sequencing data. Please see Gao S et al., Genome Research (2021) https://genome.cshlp.org/content/31/7/1296 for details.

caffe

Caffe: a fast open framework for deep learning.

cellrank_reproducibility

CellRank's reproducibility repository.

celltypist

A tool for semi-automatic cell type classification, harmonization and integration

chromium

R package for the analysis and visualization of Hi-C data

color-deconvolution

Color Deconvolution Algorithms for H+E images

deepcpg

Deep neural networks for predicting CpG methylation

deeplearning

deeplearning-notes

Notes for Deep Learning Specialization Courses led by Andrew Ng.

dnbelab_c_series_scrna-analysis-software

An open source and flexible pipeline to analyze DNBelab C Series single-cell RNA datasets.

epimap_analysis

Epimap processing and analysis code repository

examples

A set of examples around pytorch in Vision, Text, Reinforcement Learning, etc.

extractsequence

Corresponding cell sequences were extracted according to barcode

genrich

Detecting sites of genomic enrichment

gget

🧬 gget enables efficient querying of genomic reference databases

glioma_singlecell_project

htslib

C library for high-throughput sequencing data formats

idba_ud

Fork of the IDBA-UD short read assembler

lab-website-template

(Pre-release) An easy-to-use, flexible website template for labs, with automatic citations, GitHub tag imports, pre-built components, and more

learning-opencv-3_examples

learnopencv

Learn OpenCV : C++ and Python Examples

leetcode

machine-learning-is-all-you-need

🔥🌟《Machine Learning 格物志》: ML + DL + RL basic codes and notes by sklearn, PyTorch, TensorFlow, Keras & the most important, from scratch!💪 This repository is ALL You Need!

math

🧮 Path to a free self-taught education in Mathematics!