Topic: transcriptomics Goto Github
Some thing interesting about transcriptomics
Some thing interesting about transcriptomics
transcriptomics,Transcript discovery and quantification with long RNA reads (Nanopores and PacBio)
Organization: ablab
transcriptomics,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.
Organization: aertslab
Home Page: http://scenic.aertslab.org
transcriptomics,Finding surprising needles (=genes) in haystacks (=single cell transcriptome data).
User: alexisvdb
Home Page: https://alexisvdb.github.io/singleCellHaystack/
transcriptomics,Hierarchical, iterative clustering for analysis of transcriptomics data in R
Organization: alleninstitute
transcriptomics,Inference of cell-cell communication from single-cell RNAseq data
User: arc85
Home Page: https://arc85.github.io/celltalker/
transcriptomics,Transcriptomics Visualization R package.
User: benben-miao
Home Page: https://benben-miao.github.io/TOmicsVis/
transcriptomics,This repository gives an overview of my teaching activities. Links to slides and data sets are included. Feel free to re-use my content.
User: bpucker
Home Page: https://www.tu-braunschweig.de/en/ifp/pbb
transcriptomics,An interactive explorer for single-cell transcriptomics data
Organization: chanzuckerberg
Home Page: https://chanzuckerberg.github.io/cellxgene/
transcriptomics,🐟 🔬🦀 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
transcriptomics,
Organization: combine-lab
transcriptomics,just annotate it, dammit!
Organization: dib-lab
Home Page: http://dib-lab.github.io/dammit/
transcriptomics,Enjoy your transcriptomic data and analysis responsibly - like sipping a cocktail
User: federicomarini
Home Page: https://federicomarini.github.io/GeneTonic
transcriptomics,PANDORA - Predictive Analytics aNd Data Oriented Research Applications :computer:
Organization: genular
Home Page: https://atomic-lab.org
transcriptomics,Reference-guided transcript discovery and quantification for long read RNA-Seq data
Organization: goekelab
transcriptomics,Nanopore RNA-Seq data from the Singapore Nanopore-Expression Project
Organization: goekelab
transcriptomics,Identification of differential RNA modifications from nanopore direct RNA sequencing
Organization: goekelab
Home Page: https://xpore.readthedocs.io/
transcriptomics,Predict RNA velocity through deep learning
Organization: guangyuwanglab2021
Home Page: https://guangyuwanglab2021.github.io/cellDancer_website/
transcriptomics,Analyze your RNA sequencing data without writing a single line of code
User: guyteichman
Home Page: https://guyteichman.github.io/RNAlysis/
transcriptomics,R package for analyzing single-cell RNA-seq data
Organization: hms-dbmi
Home Page: http://pklab.med.harvard.edu/scde
transcriptomics,R/shiny interface for interactive visualization of data in SummarizedExperiment objects
Organization: isee
Home Page: https://isee.github.io/iSEE/
transcriptomics,R package for pathway analysis in scRNA-seq data
User: jackbibby1
Home Page: https://jackbibby1.github.io/SCPA/
transcriptomics,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/
transcriptomics,Multi-sample Unified Discriminant ANalysis
User: jefworks
Home Page: http://jef.works/MUDAN/
transcriptomics,A list of web-based interactive biological data visualizations.
User: keller-mark
transcriptomics,R package for analyzing and interactively exploring large-scale single-cell RNA-seq datasets
Organization: kharchenkolab
transcriptomics,Bring your single-cell data to life
Organization: lilab-bcb
Home Page: https://cirrocumulus.readthedocs.io/
transcriptomics,Fusing Histology and Genomics via Deep Learning - IEEE TMI
Organization: mahmoodlab
Home Page: http://www.mahmoodlab.org
transcriptomics,Digital Expression Explorer 2 (DEE2): a repository of uniformly processed RNA-seq data
User: markziemann
Home Page: http://dee2.io
transcriptomics,Tools to annotate genomes using long read transcriptomics data
Organization: nanoporetech
transcriptomics,A tool to identify, orient, trim and rescue full length cDNA reads
Organization: nanoporetech
transcriptomics,Expression Weighted Celltype Enrichment. See the package website for up-to-date instructions on usage.
User: nathanskene
Home Page: https://nathanskene.github.io/EWCE/index.html
transcriptomics,Pipeline for processing spatially-resolved gene counts with spatial coordinates and image data. Designed for 10x Genomics Visium transcriptomics.
Organization: nf-core
Home Page: https://nf-co.re/spatialvi
transcriptomics,Cellxgene Gateway allows you to use the Cellxgene Server provided by the Chan Zuckerberg Institute (https://github.com/chanzuckerberg/cellxgene) with multiple datasets.
Organization: novartis
transcriptomics,An ontology of cell types
Organization: obophenotype
Home Page: https://obophenotype.github.io/cell-ontology/
transcriptomics,The COnstraint-Based Reconstruction and Analysis Toolbox. Documentation:
Organization: opencobra
Home Page: https://opencobra.github.io/cobratoolbox
transcriptomics,A Python implementation of the DESeq2 pipeline for bulk RNA-seq DEA.
Organization: owkin
Home Page: https://pydeseq2.readthedocs.io/en/latest/
transcriptomics,From geospatial to spatial -omics
Organization: pachterlab
Home Page: https://pachterlab.github.io/voyager/
transcriptomics,Multiome GRN inference.
Organization: quadbio
Home Page: https://quadbio.github.io/Pando/
transcriptomics,COSMOS (Causal Oriented Search of Multi-Omic Space) is a method that integrates phosphoproteomics, transcriptomics, and metabolomics data sets.
Organization: saezlab
Home Page: https://saezlab.github.io/cosmosR/
transcriptomics,Python package to perform enrichment analysis from omics data.
Organization: saezlab
Home Page: https://decoupler-py.readthedocs.io/
transcriptomics,Annotated data.
Organization: scverse
Home Page: http://anndata.readthedocs.io
transcriptomics,Single-cell analysis in Python. Scales to >1M cells.
Organization: scverse
Home Page: https://scanpy.readthedocs.io
transcriptomics,starfish: unified pipelines for image-based transcriptomics
Organization: spacetx
Home Page: https://spacetx-starfish.readthedocs.io/en/latest/
transcriptomics,Brings bulk and pseudobulk transcriptomics to the tidyverse
User: stemangiola
transcriptomics,Differential expression analysis for single-cell RNA-seq data.
Organization: theislab
Home Page: https://diffxpy.rtfd.io
transcriptomics,Single cell perturbation prediction
Organization: theislab
Home Page: https://scgen.readthedocs.io
transcriptomics,Revolutionizing DNA analysis and making it accessible to all through innovative AI-powered analysis and interpretive tools.
User: verisimilitudex
Home Page: http://dnanalyzer.org/
transcriptomics,ClusterMap for multi-scale clustering analysis of spatial gene expression
Organization: wanglab-broad
transcriptomics,Automatic Annotation on Cell Types of Clusters from Single-Cell RNA Sequencing Data
User: zjufanlab
Home Page: https://www.sciencedirect.com/science/article/pii/S2589004220300663
transcriptomics,Cell-type Annotation for Single-cell Transcriptomics using Deep Learning with a Weighted Graph Neural Network
User: zjufanlab
Home Page: https://doi.org/10.1093/nar/gkab775
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