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Search results for rna seq transcriptomics
rna-seq
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transcriptomics
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37 search results found
Pydeseq2
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470
A Python implementation of the DESeq2 pipeline for bulk RNA-seq DEA.
Sccatch
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171
Automatic Annotation on Cell Types of Clusters from Single-Cell RNA Sequencing Data
Bambu
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150
Reference-guided transcript discovery and quantification for long read RNA-Seq data
Xpore
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122
Identification of differential RNA modifications from nanopore direct RNA sequencing
Alevin Fry
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115
🐟 🔬🦀 alevin-fry is an efficient and flexible tool for processing single-cell sequencing data, currently focused on single-cell transcriptomics and feature barcoding.
Rnalysis
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114
RNA sequencing analysis software
Isoquant
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98
Transcript discovery and quantification with long RNA reads (Nanopores and PacBio)
Sg Nex Data
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80
Nanopore RNA-Seq data from the Singapore Nanopore-Expression Project
Pychopper
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74
A tool to identify, orient, trim and rescue full length cDNA reads
Tomicsvis
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50
Transcriptomics Visualization R package.
Terminus
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43
Cellxgene Gateway
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40
Cellxgene Gateway allows you to use the Cellxgene Server provided by the Chan Zuckerberg Institute (https://github.com/chanzuckerberg/cellxgene) with multiple datasets.
Dee2
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37
Digital Expression Explorer 2 (DEE2): a repository of uniformly processed RNA-seq data
Pinfish
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36
Tools to annotate genomes using long read transcriptomics data
Spatialtranscriptomics
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34
Pipeline for processing spatially-resolved gene counts with spatial coordinates and image data. Designed for 10x Genomics Visium transcriptomics.
Metaomgraph
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30
MetaOmGraph: a workbench for interactive exploratory data analysis of large expression datasets
Volcano3d
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28
An R package to plot interactive three-way differential expression analysis
Pisces
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26
PISCES is a pipeline for rapid transcript quantitation, genetic fingerprinting, and quality control assessment of RNAseq libraries using Salmon.
Mudskipper
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25
A tool for projecting genomic alignments to transcriptomic coordinates
Teaching
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25
This repository gives an overview of my teaching activities. Links to slides and data sets are included. Feel free to re-use my content.
Asap
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24
ASAP : Automated Single-cell Analysis Pipeline
Fishpond
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23
Differential expression and allelic analysis, nonparametric statistics
Pipeline Pinfish Analysis
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22
Pipeline for annotating genomes using long read transcriptomics data with pinfish
Pipeline Nanopore Denovo Isoforms
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19
Pipeline for de novo clustering of long transcriptomic reads
Rnaseq Pipeline
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18
RNA-seq pipeline for raw sequence alignment and transcript/gene quantification.
Rna Seq Pop
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17
Snakemake workflow for Illumina RNA-sequencing experiments - extract population genomic signals from RNA-Seq data
Transpi
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13
TransPi – a comprehensive TRanscriptome ANalysiS PIpeline for de novo transcriptome assembly
Circompara
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12
🔬 A multi-method comparative bioinformatics pipeline to detect and study circRNAs from RNA-seq data
Isonclust2
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11
A tool for de novo clustering of long transcriptomic reads
Bioinformatics
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10
A suite of bioinformatics data processing and analysis pipelines, software, and training resources for common DNA and RNA sequence analysis methods.
Tbro
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10
Visualization and management of denovo transcriptomes
Spatial
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9
Single-Cell Spatial Explorer
Bgee_pipeline
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8
Source code of the Bgee pipeline used to build the Bgee database
Nease
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7
A network-based approach for exon set enrichment
Trendcatcher
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7
TrendCatcher is an open source R-package that allows users to systematically analyze and visualize time course data. Please cite "Temporal transcriptomic analysis using TrendCatcher identifies early and persistent neutrophil activation in severe COVID-19" by Xinge Wang et al published in JCI Insight (2022) - https://insight.jci.org/articles/view/157255
Dturtle
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6
Perform differential transcript usage (DTU) analysis of bulk or single-cell RNA-seq data. See documentation at:
Curare
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6
Curare - A customizable and reproducible analysis pipeline for RNA-Seq experiments
Caars
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6
CAARS: Comparative Assembly and Annotation of RNA-Seq data
Circminer
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5
A sensitive and fast tool for circular RNA detection from RNA-Seq data
Genexvis
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5
An application for exploring and visualizing differential gene expression data created with DESeq2
Lyric
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5
Long RNA-seq analysis workflow
Related Searches
R Rna Seq (194)
Python Rna Seq (187)
Bioinformatics Rna Seq (141)
Pipeline Rna Seq (115)
R Transcriptomics (79)
1-37 of 37 search results
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