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SIP, a Single-cell Interchangeable Pipeline, still under construction
Secondary analysis pipelines
SLICER algorithm for inferring cell trajectories. See details in Welch et al., Genome Biology 2016: http://genomebiology.biomedcentral.com/articles/10.1186/s13059-016-0975-3
Functions for identifying and characterizing continuous developmental trajectories in single-cell data.
Single Nucleus Analysis Pipeline for ATAC-seq
dropseq-based single nuclei genomic accessibility and RNA expression (SNARE-seq) preprocessing pipeline
Analysis of snRNA-seq2 data coming from 3 months old mouse liver, dissecting the influence ploidy has on gene expression.
An ensemble approach to accurately detect somatic mutations using SomaticSeq
Clustering scRNAseq by genotypes
SOUP, for Semi-sOft clUstering with Pure cells.
Demultiplexes a fastq.
simpler single cell RNAseq data clustering
R Package: Steiner Tree Approach for Graph Analysis
:exclamation: This is a read-only mirror of the CRAN R package repository. SteinerNet — Steiner Tree Approach for Graph Analysis. Homepage: https://github.com/krashkov/SteinerNet Report bugs for this package: https://github.com/krashkov/SteinerNet/issues
Analysis pipeline for cancer exomes
Similarity Weighted Nonnegative Embedding (SWNE), a method for visualizing high dimensional datasets
R markdown notebooks for the Tabula Muris network analysis in Iacono et al. (2019)
TCGAbiolinks
A template Sphinx repo
Texomer: Integrating Analysis of Cancer Genome and Transcriptome Sequencing Data
post-clustering differential expression test
TOP results by CONfident efFECT Sizes.
Source code and input data to reproduce the case studies presented in the TRaIT framework: https://bmcbioinformatics.biomedcentral.com/articles/10.1186/s12859-019-2795-4
TreeExp 2.0: Toolbox for analyzing expression evolution based on RNA-seq count data
Import and summarize transcript-level estimates for gene-level analysis
A declarative, efficient, and flexible JavaScript library for building user interfaces.
🖖 Vue.js is a progressive, incrementally-adoptable JavaScript framework for building UI on the web.
TypeScript is a superset of JavaScript that compiles to clean JavaScript output.
An Open Source Machine Learning Framework for Everyone
The Web framework for perfectionists with deadlines.
A PHP framework for web artisans
Bring data to life with SVG, Canvas and HTML. 📊📈🎉
JavaScript (JS) is a lightweight interpreted programming language with first-class functions.
Some thing interesting about web. New door for the world.
A server is a program made to process requests and deliver data to clients.
Machine learning is a way of modeling and interpreting data that allows a piece of software to respond intelligently.
Some thing interesting about visualization, use data art
Some thing interesting about game, make everyone happy.
We are working to build community through open source technology. NB: members must have two-factor auth.
Open source projects and samples from Microsoft.
Google ❤️ Open Source for everyone.
Alibaba Open Source for everyone
Data-Driven Documents codes.
China tencent open source team.