Topic: single-cell-rna-seq Goto Github
Some thing interesting about single-cell-rna-seq
Some thing interesting about single-cell-rna-seq
single-cell-rna-seq,:hibiscus: reference-free transcriptome assembly for short and long reads
Organization: bcgsc
single-cell-rna-seq,
Organization: cole-trapnell-lab
single-cell-rna-seq,🐟 🔬🦀 alevin-fry is an efficient and flexible tool for processing single-cell sequencing data, currently focused on single-cell transcriptomics and feature barcoding.
Organization: combine-lab
Home Page: https://alevin-fry.readthedocs.io
single-cell-rna-seq,🐟 🍣 🍱 Highly-accurate & wicked fast transcript-level quantification from RNA-seq reads using selective alignment
Organization: combine-lab
Home Page: https://combine-lab.github.io/salmon
single-cell-rna-seq,Color blindness friendly visualization of single-cell and bulk RNA-sequencing data
User: dtm2451
single-cell-rna-seq,A collection of 50+ trajectory inference methods within a common interface 📥📤
Organization: dynverse
Home Page: https://dynverse.org
single-cell-rna-seq,A set of tools supporting the development, execution, and benchmarking of trajectory inference methods. 🌍
Organization: dynverse
Home Page: http://dynverse.org
single-cell-rna-seq,Generate high quality, publication ready visualizations for single cell transcriptomics data.
User: enblacar
Home Page: https://enblacar.github.io/SCpubr-book/
single-cell-rna-seq,A BLAST-like toolkit for large-scale scRNA-seq data querying and annotation.
Organization: gao-lab
Home Page: http://cblast.gao-lab.org
single-cell-rna-seq,Cluster single cells and analyze cell clade relationships with colorful visualizations.
User: gregoryschwartz
Home Page: https://gregoryschwartz.github.io/too-many-cells/
single-cell-rna-seq,A tool for the unsupervised clustering of cells from single cell RNA-Seq experiments
Organization: hemberg-lab
Home Page: http://bioconductor.org/packages/SC3
single-cell-rna-seq,A tool for unsupervised projection of single cell RNA-seq data
Organization: hemberg-lab
Home Page: http://bioconductor.org/packages/scmap
single-cell-rna-seq,HMM-integrated Bayesian approach for detecting CNV and LOH events from single-cell RNA-seq data
Organization: jefworks-lab
Home Page: http://jef.works/HoneyBADGER/
single-cell-rna-seq,Deep Learning based cell composition analysis with Scaden.
User: kevinmenden
Home Page: https://scaden.readthedocs.io
single-cell-rna-seq,R package for the joint analysis of multiple single-cell RNA-seq datasets
Organization: kharchenkolab
single-cell-rna-seq,Pipeline for initial analysis of droplet-based single-cell RNA-seq data
Organization: kharchenkolab
single-cell-rna-seq,Haplotype-aware CNV analysis from single-cell RNA-seq
Organization: kharchenkolab
Home Page: https://kharchenkolab.github.io/numbat/
single-cell-rna-seq,R package for analyzing and interactively exploring large-scale single-cell RNA-seq datasets
Organization: kharchenkolab
single-cell-rna-seq,Single-cell disease relevance score (scDRS)
User: martinjzhang
Home Page: https://martinjzhang.github.io/scDRS/
single-cell-rna-seq,Interfaces for HDF5-based Single Cell File Formats
User: mojaveazure
Home Page: https://mojaveazure.github.io/seurat-disk
single-cell-rna-seq,integrated RNA-seq Analysis Pipeline
User: nunofonseca
single-cell-rna-seq,DANCE: a deep learning library and benchmark platform for single-cell analysis
Organization: omicsml
Home Page: https://pydance.readthedocs.io
single-cell-rna-seq,A wrapper for the kallisto | bustools workflow for single-cell RNA-seq pre-processing
Organization: pachterlab
Home Page: https://www.kallistobus.tools/
single-cell-rna-seq,Toolkit for highly memory efficient analysis of single-cell RNA-Seq, scATAC-Seq and CITE-Seq data. Analyze atlas scale datasets with millions of cells on laptop.
User: parashardhapola
Home Page: http://scarf.readthedocs.io
single-cell-rna-seq,R package to visualize gene expression data based on weighted kernel density estimation
Organization: powellgenomicslab
single-cell-rna-seq,Tutorial for scRNA-seq data analysis beginners using R
Organization: quadbio
single-cell-rna-seq,Infer cell types in scRNA-seq data using bulk RNA-seq or gene sets
Organization: rnabioco
Home Page: https://rnabioco.github.io/clustifyr/
single-cell-rna-seq,MultiNicheNet: a flexible framework for differential cell-cell communication analysis from multi-sample multi-condition single-cell transcriptomics data
Organization: saeyslab
single-cell-rna-seq,NicheNet: predict active ligand-target links between interacting cells
Organization: saeyslab
single-cell-rna-seq,LIANA+: an all-in-one framework for cell-cell communication
Organization: saezlab
Home Page: http://liana-py.readthedocs.io/
single-cell-rna-seq,R package with collection of functions created and/or curated to aid in the visualization and analysis of single-cell data using R.
User: samuel-marsh
Home Page: https://samuel-marsh.github.io/scCustomize/
single-cell-rna-seq,A Shiny web app for mapping datasets using Seurat v4
Organization: satijalab
Home Page: https://satijalab.org/azimuth
single-cell-rna-seq,R toolkit for single cell genomics
Organization: satijalab
Home Page: http://www.satijalab.org/seurat
single-cell-rna-seq,Single-Cell Clustering Assessment Framework
Organization: sccaf
single-cell-rna-seq,Table of software for the analysis of single-cell RNA-seq data.
Organization: scrna-tools
Home Page: https://www.scrna-tools.org
single-cell-rna-seq,Deep probabilistic analysis of single-cell and spatial omics data
Organization: scverse
Home Page: http://scvi-tools.org/
single-cell-rna-seq,Spatial Single Cell Analysis in Python
Organization: scverse
Home Page: https://squidpy.readthedocs.io/en/stable/
single-cell-rna-seq,Seurat meets tidyverse. The best of both worlds.
User: stemangiola
Home Page: https://stemangiola.github.io/tidyseurat/
single-cell-rna-seq,
User: tallulandrews
single-cell-rna-seq,Metacell - Single-cell mRNA Analysis
Organization: tanaylab
Home Page: https://tanaylab.github.io/metacell
single-cell-rna-seq,CellRank: dynamics from multi-view single-cell data
Organization: theislab
Home Page: https://cellrank.org
single-cell-rna-seq,The Compositional Perturbation Autoencoder (CPA) is a deep generative framework to learn effects of perturbations at the single-cell level. CPA performs OOD predictions of unseen combinations of drugs, learns interpretable embeddings, estimates dose-response curves, and provides uncertainty estimates.
Organization: theislab
single-cell-rna-seq,Differential expression analysis for single-cell RNA-seq data.
Organization: theislab
Home Page: https://diffxpy.rtfd.io
single-cell-rna-seq,A Bayesian model for compositional single-cell data analysis
Organization: theislab
single-cell-rna-seq,scDeepCluster for Single Cell RNA-seq data
User: ttgump
single-cell-rna-seq,Accurate and robust imputation of scRNA-seq data
User: vivianstats
Home Page: https://www.nature.com/articles/s41467-018-03405-7
single-cell-rna-seq,Multi-subject Single Cell Deconvolution
User: xuranw
Home Page: https://github.com/xuranw/MuSiC
single-cell-rna-seq,Similarity Weighted Nonnegative Embedding (SWNE), a method for visualizing high dimensional datasets
User: yanwu2014
single-cell-rna-seq,A Package for Cas9-Enabled Single Cell Lineage Tracing Tree Reconstruction
Organization: yoseflab
Home Page: https://cassiopeia-lineage.readthedocs.io/en/latest/
single-cell-rna-seq,An end-to-end Single-Cell Pipeline designed to facilitate comprehensive analysis and exploration of single-cell data.
User: zhanghao-njmu
Home Page: https://zhanghao-njmu.github.io/SCP/
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