GitHub topics: microarray
viktormiok/PhD-thesisSM
PhD thesis supplementary materials
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CNAG-Biomedical-Informatics/beacon2-cbi-tools Fork of EGA-archive/beacon2-ri-tools
Beacon v2 - CNAG Biomedical Informatics - Tools (Data ingestion tools)
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greenelab/RNAseq_titration_results
Cross-platform normalization enables machine learning model training on microarray and RNA-seq data simultaneously
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zwdzwd/sesame
🍪 SEnsible Step-wise Analysis of DNA MEthylation BeadChips
Language: R - Size: 18.4 MB - Last synced at: 21 days ago - Pushed at: 5 months ago - Stars: 72 - Forks: 36
viktormiok/tigaRcycle
An R package for utilities to guide in-depth detection of circadian signals from omics time series data
Language: Jupyter Notebook - Size: 3.92 MB - Last synced at: about 2 months ago - Pushed at: about 2 months ago - Stars: 2 - Forks: 1
nf-core/differentialabundance
Differential abundance analysis for feature/ observation matrices from platforms such as RNA-seq
Language: Nextflow - Size: 9.85 MB - Last synced at: 16 days ago - Pushed at: 16 days ago - Stars: 78 - Forks: 48
mikelove/bioc-refcard
Bioconductor cheat sheet
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guma44/GEOparse
Python library to access Gene Expression Omnibus Database (GEO)
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HenrikBengtsson/aroma.affymetrix
🔬 R package: Analysis of Large Affymetrix Microarray Data Sets
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viktormiok/PhD-thesis
Latex scripts to compile my PhD thesis
Language: TeX - Size: 9.91 MB - Last synced at: 3 months ago - Pushed at: 3 months ago - Stars: 5 - Forks: 2
qPCR4vir/VisualOliDeg
design of primers and probes for PCR/microarray by visual selection from aligned DNA sequences
Language: Visual Basic - Size: 901 KB - Last synced at: 3 months ago - Pushed at: over 8 years ago - Stars: 2 - Forks: 0
TCP-Lab/bioTEA
bioTEA - A user friendly tool to perform transcript expression analysis
Language: Python - Size: 15.7 MB - Last synced at: 16 days ago - Pushed at: 7 months ago - Stars: 3 - Forks: 2
xindong95/DEAP
Differential Expression Analysis Pipeline
Language: Python - Size: 247 KB - Last synced at: 10 months ago - Pushed at: 10 months ago - Stars: 0 - Forks: 1
greenelab/TDM
R package for normalizing RNA-seq data to make them comparable to microarray data.
Language: R - Size: 6.02 MB - Last synced at: 16 days ago - Pushed at: about 2 years ago - Stars: 37 - Forks: 13
RGLab/HIPCMatrix
Utilities for processing and analyzing HIPC gene expression data in ImmuneSpace
Language: R - Size: 77.2 MB - Last synced at: 11 months ago - Pushed at: over 2 years ago - Stars: 1 - Forks: 1
Honchkrow/Deconer
Deconer: A Comprehensive and Systematic Cell Type Deconvolution Evaluator
Language: R - Size: 69.5 MB - Last synced at: 11 months ago - Pushed at: 11 months ago - Stars: 0 - Forks: 0
gh-osh/pd.mirna.4.1
Affymetrix miRNA4.1 / oligo package / pd.mirna.4.1
Language: R - Size: 10 MB - Last synced at: 11 months ago - Pushed at: over 5 years ago - Stars: 1 - Forks: 0
gustaveroussy/apt.cytoscan.2.4.0
Affymetrix CytoScan (750k / HD) processing using apt-copynumber-cyto-ssa (2.4.0)
Language: R - Size: 5.01 MB - Last synced at: 11 months ago - Pushed at: 11 months ago - Stars: 1 - Forks: 0
AcubeSAT/meta-analysis
Selection of genes to be cultured and studied on-board for the AcubeSAT nanosatellite project. Microarray data analysis in R. Meta-analysis in R. Literature review and more
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iwasakishuto/TeiLab-BasicLaboratoryWork-in-LifeScienceExperiments
シークエンシング、生化学反応シミュレーション、および遺伝子発現プロファイリング等の生物情報科学的実験を行う。本実習は、生物化学科と合同で実施する。
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viktormiok/tigaR
Temporal Integrative Genomics Analysis in R
Language: R - Size: 926 KB - Last synced at: about 1 year ago - Pushed at: about 1 year ago - Stars: 3 - Forks: 1
GrosseLab/BGSC
Bayesian Gene Selection Criterion (BGSC) approach
Language: R - Size: 15.6 MB - Last synced at: about 1 year ago - Pushed at: over 5 years ago - Stars: 2 - Forks: 0
CBFLivUni/SkeletalVis-Transcriptomics
Nextflow pipeline for microarray and RNA-seq
Language: R - Size: 11.6 MB - Last synced at: 7 months ago - Pushed at: over 1 year ago - Stars: 0 - Forks: 0
kmyafi/Breast-Cancer-Differential-Gene-Expression-Analysis
Differential Gene Expression (DGE) Analysis in Curated Microarray Data of Breast Cancer Subtypes
Language: R - Size: 924 KB - Last synced at: over 1 year ago - Pushed at: over 1 year ago - Stars: 0 - Forks: 0
benja0x40/MRA.TA
Multi Resolution Analysis of Tiling Arrays. (R package)
Language: R - Size: 1.19 MB - Last synced at: over 1 year ago - Pushed at: about 2 years ago - Stars: 0 - Forks: 0
rgarcia-herrera/tuberculosis-diff
Tuberculosis@LOG and NPR, Macrophage gene expression time series.
Language: Python - Size: 1.02 MB - Last synced at: over 1 year ago - Pushed at: over 7 years ago - Stars: 0 - Forks: 0
gustaveroussy/apt.oncoscan.2.4.0
Affymetrix OncoScan / OncoScan_CNV processing using apt-copynumber-onco-ssa (2.4.0)
Language: R - Size: 5.27 MB - Last synced at: over 1 year ago - Pushed at: over 6 years ago - Stars: 1 - Forks: 3
gustaveroussy/apt.snp6.1.20.0
Affymetrix GenomeWideSNP_6 processing using apt-copynumber-workflow (1.20.0)
Language: R - Size: 17 MB - Last synced at: over 1 year ago - Pushed at: over 6 years ago - Stars: 0 - Forks: 0
LeRicNet/diff-net-analysis-microarray
A workflow for gaining statistical insight via differential network analysis of microarray data
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ND91/general_bio
A repository containing general scripts that are useful within bioinformatics
Language: Shell - Size: 17.6 KB - Last synced at: over 1 year ago - Pushed at: over 8 years ago - Stars: 0 - Forks: 0
pmadanecki/htdp
High-throughput Tabular Data Processor (HTDP)
Size: 111 MB - Last synced at: over 1 year ago - Pushed at: about 7 years ago - Stars: 1 - Forks: 0
dlaperriere/GEO_microarrays
analyze_geo_microarrays.py : Differential expression analysis of published microarrays datasets from the NCBI Gene Expression Omnibus (GEO)
Language: Python - Size: 79.1 KB - Last synced at: over 1 year ago - Pushed at: almost 4 years ago - Stars: 7 - Forks: 4
michaeltneylon/spark_rma
SparkRMA: Robust Multi-array Average (RMA) In Apache Spark
Language: Python - Size: 55.7 KB - Last synced at: over 1 year ago - Pushed at: almost 7 years ago - Stars: 3 - Forks: 0
alexvpickering/revigoR
scrape REVIGO Gene Ontology web app and plot results
Language: R - Size: 2.68 MB - Last synced at: over 1 year ago - Pushed at: about 4 years ago - Stars: 0 - Forks: 0
sunnyosun/array_server
CGI server for searching and visualizing array database
Language: Python - Size: 3.22 MB - Last synced at: over 1 year ago - Pushed at: over 6 years ago - Stars: 0 - Forks: 0
kalyaniuniversity/mgx-datasets
A list of publicly available Microarray Gene Expression datasets with proper attribution and associated toolkits.
Language: Python - Size: 32 MB - Last synced at: about 1 year ago - Pushed at: almost 5 years ago - Stars: 1 - Forks: 2
shyammarjit/SAGA
SAGA: Simulated annealing aided genetic algorithm for gene selection from microarray data
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rachadele/extract-geo-metadata
extract experimental metadata from GEO xml files
Language: Python - Size: 159 KB - Last synced at: over 1 year ago - Pushed at: over 1 year ago - Stars: 0 - Forks: 0
minseven/MicroarrayProcessing
Microarray data processing
Language: R - Size: 25.7 MB - Last synced at: almost 2 years ago - Pushed at: almost 8 years ago - Stars: 0 - Forks: 0
fgajardoe/Lakritz_zebrafish_DE_analysis
R and Bash scripts used for in the differential expression analysis of microarray data for the Zebrafish atoh7 -/- mutant.
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jzhangc/git_RBioArray
Simple to use package for OMICS data analysis (featuring limma, WGCNA, GSEA)
Language: R - Size: 42.7 MB - Last synced at: 4 months ago - Pushed at: 4 months ago - Stars: 1 - Forks: 0
ahmedmoustafa/gene-expression-datasets
Collection of gene expression datasets
Size: 22.9 MB - Last synced at: over 1 year ago - Pushed at: over 1 year ago - Stars: 4 - Forks: 0
zqzneptune/affyio Fork of bmbolstad/affyio
Updated version to handle CEL files
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viktormiok/BioFig
R package for visualization of omics data
Language: R - Size: 5.39 MB - Last synced at: about 2 years ago - Pushed at: about 2 years ago - Stars: 3 - Forks: 0
idssplab/overall_survival_nsclc
bimodal DNN for NSCLC patient overall survival prediction
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tarlaun/BioInf_Project
Bioinformatics course project - Fall 2020, analysis of genetic expression omnibus (GEO) data series of Acute Myeloid Leukemia
Language: Python - Size: 96.2 MB - Last synced at: about 2 years ago - Pushed at: about 4 years ago - Stars: 5 - Forks: 1
tiagochavo87/LCSH_analysis
Analysis of long continuous stretches of homozygosity of the human genome.
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Bohdan-Khomtchouk/HeatmapGenerator
Cross-platform GUI desktop application for making biological heatmaps
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SamThilmany/microarray-analysis_treatment-kinetics
This R script is used to analyze microarray data acquired by an Agilent SureScan Microarray Scanner.
Language: R - Size: 120 MB - Last synced at: about 2 years ago - Pushed at: over 2 years ago - Stars: 1 - Forks: 0
zifornd/arrays
A Snakemake workflow to analyse Affymetrix expression arrays
Language: R - Size: 210 MB - Last synced at: about 2 years ago - Pushed at: over 2 years ago - Stars: 0 - Forks: 1
allielarocco/Microarray-Analysis
Microarray Analysis Pipeline in Python
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gustaveroussy/EaCoN
Easy Copy Number !
Language: R - Size: 3.1 MB - Last synced at: over 2 years ago - Pushed at: over 3 years ago - Stars: 19 - Forks: 13
upashu1/Pytorch-UNet-2 Fork of milesial/Pytorch-UNet
UNet 2.0 - Pytorch implementation of the U-Net 2.0 for image semantic segmentation, with processing blocks for noisy images
Language: Python - Size: 48.4 MB - Last synced at: over 2 years ago - Pushed at: over 5 years ago - Stars: 7 - Forks: 5
adimascf/idat2plink
A simple program to generate .vcf and plink format files from .idat files
Language: Shell - Size: 16.6 KB - Last synced at: about 1 year ago - Pushed at: about 1 year ago - Stars: 0 - Forks: 0
xlxs4/meta-analysis
Selection of genes to be cultured and studied on-board for the AcubeSAT nanosatellite project. Microarray data analysis in R. Meta-analysis in R. Literature review and more
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baneslab/iScanVCFMerge
Python tool to merge cross-species Illumina iScan genotype data with a reference set of genotypes from a pre-existing source.
Language: Python - Size: 261 KB - Last synced at: 29 days ago - Pushed at: about 3 years ago - Stars: 0 - Forks: 0
XPRESSyourself/XPRESSplot
A toolkit for navigating and analyzing gene expression datasets
Language: Python - Size: 90.1 MB - Last synced at: about 1 month ago - Pushed at: about 3 years ago - Stars: 3 - Forks: 1
kornor/Affy
Affy microarray processing
Language: R - Size: 2.03 MB - Last synced at: over 1 year ago - Pushed at: about 10 years ago - Stars: 0 - Forks: 0
oheil/AffyCelFiles.jl
read Affymetrix .CEL files
Language: Julia - Size: 49.8 KB - Last synced at: 3 months ago - Pushed at: over 1 year ago - Stars: 0 - Forks: 0
amarinderthind/RankerGUI
R script used for the preparation of the initial input file, i.e. merging of various studies by logFC (LogFC),
Language: R - Size: 7.72 MB - Last synced at: over 1 year ago - Pushed at: over 4 years ago - Stars: 0 - Forks: 0
SiYangming/ReadAligentFiles
Language: R - Size: 177 MB - Last synced at: over 2 years ago - Pushed at: over 3 years ago - Stars: 0 - Forks: 0
cemordaunt/AutismCordBloodExpression
Analysis of gene expression in umbilical cord blood from ASD, Non-TD, and TD subjects in the MARBLES and EARLI studies
Language: R - Size: 52.7 KB - Last synced at: 9 months ago - Pushed at: over 3 years ago - Stars: 1 - Forks: 0
draeger-lab/InCroMAP
Integrated analysis of Cross-platform MicroArray and Pathway data
Language: Java - Size: 382 MB - Last synced at: over 1 year ago - Pushed at: about 7 years ago - Stars: 2 - Forks: 2
fboulnois/made
Microarray Analysis of Differential Expression
Language: R - Size: 83 KB - Last synced at: 2 months ago - Pushed at: about 9 years ago - Stars: 0 - Forks: 0
rforbiodatascience21/2021_group20_final_project
Final project for "22100 R for Bio Data Science"
Language: R - Size: 290 MB - Last synced at: 12 months ago - Pushed at: about 4 years ago - Stars: 0 - Forks: 0
SaradhaVenkatachalapathy/Cell_Shape_TNF_alpha_PNAS_2017
Analysis in the paper Mitra et.al. PNAS 2017.
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widdowquinn/SI_Holmes_etal_2020
Supplementary information for Holmes et al. (2020)
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aaronwolen/mimager
mimager: The microarray imager
Language: R - Size: 134 KB - Last synced at: 3 months ago - Pushed at: over 5 years ago - Stars: 0 - Forks: 0
tfrayner/magetabutils
The MAGE-TAB Utilities project
Language: Perl - Size: 3.59 MB - Last synced at: about 2 years ago - Pushed at: over 5 years ago - Stars: 0 - Forks: 0
sjwilczynski/thesis
Master thesis on "Microarray data analysis in prediction of breast cancer metastasis" - synced from Overleaf
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ACastanza/GSEA_R_old
Revisions to the GSEA-P R Application (Subramanian and Tamayo et al 2005)
Language: R - Size: 10.6 MB - Last synced at: 4 days ago - Pushed at: over 5 years ago - Stars: 0 - Forks: 1
neocruiser/Rstats
R scripts for human and marine data analysis
Language: R - Size: 97.1 MB - Last synced at: over 1 year ago - Pushed at: almost 6 years ago - Stars: 0 - Forks: 0
WeiqiangZhou/BIRD-data
A dataset for big data prediction.
Size: 24.4 KB - Last synced at: over 2 years ago - Pushed at: almost 6 years ago - Stars: 1 - Forks: 0
bmazoure/AssayCorrector
The AssayCorrector eliminates spatial bias in HTS assays using PMP methods.
Language: R - Size: 290 KB - Last synced at: about 1 year ago - Pushed at: almost 6 years ago - Stars: 0 - Forks: 0
hexhead/inbix
In silico research group's bioinformatics toolbox for network and machine learning analysis
Language: C++ - Size: 10.2 MB - Last synced at: about 2 years ago - Pushed at: over 6 years ago - Stars: 1 - Forks: 0
hexhead/Rinbix
R package implementations and interfaces to In silico research group's bioinformatics toolbox inbix
Language: R - Size: 652 KB - Last synced at: about 2 years ago - Pushed at: over 6 years ago - Stars: 1 - Forks: 0
callahantiff/crossmeta Fork of alexvpickering/crossmeta
R code to process GEO gene expression data
Language: R - Size: 12.3 MB - Last synced at: over 2 years ago - Pushed at: almost 7 years ago - Stars: 0 - Forks: 0
parthspatel/Senior-Design
CRISPR-Cas9 Excision Therapy Suitability
Language: Python - Size: 483 KB - Last synced at: about 2 years ago - Pushed at: almost 7 years ago - Stars: 0 - Forks: 0
hernanmd/ldHeatmap_equine.2018
Plot .ld with LDHeatmap (first case applied to Equine 65k Microarray)
Language: R - Size: 6.84 KB - Last synced at: 4 months ago - Pushed at: about 7 years ago - Stars: 0 - Forks: 0
benja0x40/MiMB.4C
Chromosome Conformation Capture on Chip (4C): Data Processing. (Workflow/Scripts)
Language: R - Size: 652 KB - Last synced at: over 2 years ago - Pushed at: over 7 years ago - Stars: 0 - Forks: 0