yurasong

yurasong's Stars

• k-sys/covid-19

  A collection of work related to COVID-19

  Language:Jupyter Notebook1.4k8750432

• cBioPortal/cbioportal

  cBioPortal for Cancer Genomics

  Language:Java630526.1k480

• sqjin/CellChat

  R toolkit for inference, visualization and analysis of cell-cell communication from single-cell data

  Language:R62714727142

• broadinstitute/infercnv

  Inferring CNV from Single-Cell RNA-Seq

  Language:R55741584166

• hbctraining/scRNA-seq

  Language:SCSS5293933221

• aertslab/pySCENIC

  pySCENIC is a lightning-fast python implementation of the SCENIC pipeline (Single-Cell rEgulatory Network Inference and Clustering) which enables biologists to infer transcription factors, gene regulatory networks and cell types from single-cell RNA-seq data.

  Language:Python42518532179

• thelovelab/DESeq2

  Differential expression of RNA-seq data using the Negative Binomial

  Language:R353238290

• Teichlab/cellphonedb

  Language:Python34218267105

• kstreet13/slingshot

  Functions for identifying and characterizing continuous developmental trajectories in single-cell data.

  Language:R265824743

• knausb/vcfR

  Tools to work with variant call format files

  Language:R2461619155

• mhammell-laboratory/TEtranscripts

  A package for including transposable elements in differential enrichment analysis of sequencing datasets.

  Language:Python2181819829

• aertslab/scenicplus

  SCENIC+ is a python package to build gene regulatory networks (GRNs) using combined or separate single-cell gene expression (scRNA-seq) and single-cell chromatin accessibility (scATAC-seq) data.

  Language:Jupyter Notebook1781031128

• wheaton5/souporcell

  Clustering scRNAseq by genotypes

  Language:Python1631122946

• saeyslab/multinichenetr

  MultiNicheNet: a flexible framework for differential cell-cell communication analysis from multi-sample multi-condition single-cell transcriptomics data

  Language:HTML11339414

• UMCUGenetics/MutationalPatterns

  R package for extracting and visualizing mutational patterns in base substitution catalogues

  Language:R10497945

• CostaLab/reg-gen

  Regulatory Genomics Toolbox: Python library and set of tools for the integrative analysis of high throughput regulatory genomics data.

  Language:Python1031122230

• Durenlab/LINGER

  7553214

• ding-lab/MuSiC2

  identifying mutational significance in cancer genomes

  Language:Perl59221520

• seandavi/sars2pack

  An R package with over 50 highly cited, read-to-use, up-to-date COVID-19 pandemic data resources

  Language:R59104114

• ChangLabSNU/PaperSorter

  Sends alerts to a Slack channel for potentially interesting new articles selected from RSS feeds.

  Language:Python38125

• neocaleb/TENET

  TENET is a tool for reconstructing gene regulatory networks from pseudo-time ordered single-cell transcriptomic data.

  Language:Python381138

• YuLab-SMU/ReactomePA

  Reactome Pathway Analysis

  Language:R3783510

• kundajelab/coda

  Coda: a convolutional denoising algorithm for genome-wide ChIP-seq data

  Language:Python337512

• lhe17/nebula

  Language:C++282476

• aertslab/CREsted

  Language:Python22

• jinseob2kim/jskm

  R package for Kaplan-Meier Plot: Modified ggkm

  Language:R1911512

• hmgene/mudcookies

  We help each other to study single-cell data

  Language:Shell163123

• Camp-Lab/human_endoderm_atlas

  Language:R82

• Bioconductor/BiocAsia2020

  BiocAsia2020 repository

  61275

• ExaScience/Severo.jl

  a software package for analysis and exploration of single-cell RNA-seq datasets

  Language:Julia3702