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Search results for differential expression
differential-expression
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44 search results found
Pydeseq2
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470
A Python implementation of the DESeq2 pipeline for bulk RNA-seq DEA.
Spacexr
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225
Spatial-eXpression-R: Cell type identification (including cell type mixtures) and cell type-specific differential expression for spatial transcriptomics
Diffxpy
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157
Differential expression analysis for single-cell RNA-seq data.
Tidybulk
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153
Brings bulk and pseudobulk transcriptomics to the tidyverse
Scarf
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83
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.
Diffexpr
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67
Porting DESeq2 into python via rpy2
Rna Seq Kallisto Sleuth
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63
A Snakemake workflow for differential expression analysis of RNA-seq data with Kallisto and Sleuth.
Irap
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58
integrated RNA-seq Analysis Pipeline
Multinichenetr
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56
MultiNicheNet: a flexible framework for differential cell-cell communication analysis from multi-sample multi-condition single-cell transcriptomics data
Scclustviz
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42
Explore and share your scRNAseq clustering results
Scpower
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36
Experimental design framework for scRNAseq population studies (eQTL and DE)
Datest
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34
Compare different differential abundance and expression methods
Differentialabundance
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34
Differential abundance analysis for feature/ observation matrices from platforms such as RNA-seq
Scpa
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33
R package for pathway analysis in scRNA-seq data
Volcano3d
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28
An R package to plot interactive three-way differential expression analysis
Ideal
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28
Interactive Differential Expression AnaLysis - DE made accessible and reproducible
Heatmap Scatter Dash
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25
Interactive visualizations for differential expression
Tweedieverse
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24
Differential analysis of multi-omics data based on the Tweedie distribution
Asap
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24
ASAP : Automated Single-cell Analysis Pipeline
Batchglm
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22
Fit generalized linear models in python.
Degreport
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21
Create a cromphensive report of DEG list coming from any analysis of RNAseq data
Bioc_2020_tidytranscriptomics
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18
Workshop on tidytranscriptomics: Performing tidy transcriptomics analyses with tidybulk, tidyverse and tidyheatmap
Lncpipe
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18
UNDER DEVELOPMENT--- Analysis of long non-coding RNAs from RNA-seq datasets
Glimmav2
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17
interactive plots for differential expression analysis
Microscope
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17
ChIP-seq/RNA-seq analysis software suite for gene expression heatmaps
Rna Seq Pop
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17
Snakemake workflow for Illumina RNA-sequencing experiments - extract population genomic signals from RNA-Seq data
Vidger
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15
Make rapid visualizations of RNA-seq data in R
Manorm
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14
A robust model for quantitative comparison of ChIP-Seq data sets.
Singlecellworkflow
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13
Tutorial for the analysis of scRNA-seq data in R
Sccode
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13
The R package scCODE, a platform for data-specific DE gene detection for scRNA-seq data
D3e
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13
Discrete Distributional Differential Expression
Dekupl
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11
Exhaustive capture of biological variation in RNA-seq data through k-mer decomposition.
Promor
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9
A comprehensive R package for label-free proteomics data analysis and modeling
Beadanalyze
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8
Automated differential expression analysis for Illumina beadarrays (HT12 V4 arrays).
Debpeak
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8
DEbPeak - Analyze and integrate multi-omics to unravel the regulation of gene expression.
Sclane
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6
Characterize gene dynamics over trajectories using GLMs, GEEs, & GLMMs.
Survcomp
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6
R package for performance assessment and comparison for survival analysis
Plateeffects2016
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6
Code and manuscript files for Aaron's plate effect paper.
Curare
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6
Curare - A customizable and reproducible analysis pipeline for RNA-Seq experiments
Yeskit
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5
Yet another single-cell analysis toolkit
Microarraypipeline
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5
MAAPster is a comprehensive tool to perform transcriptome analysis of human or mouse Affymetrix gene expression data
Genexvis
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5
An application for exploring and visualizing differential gene expression data created with DESeq2
Moomin
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5
MOOMIN is a tool for analysing differential expression data
Utr_add_extend_gtf
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5
Provided tool will add explicit 3'UTR and extends it into a valid Ensembl GTF file. It's useful for 3'RNAseq when 3' coordinates might not be as good as you expect.
1-44 of 44 search results
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