bioinformatics-analysis

There are 45 repositories under bioinformatics-analysis topic.

BioContainers / containers
Bioinformatics containers
bioinformatics bioinformatics-containers biocontainers-architecture bioinformatics-analysis rkt docker-image dockerfiles
Language:Dockerfile 649
gcp-for-bioinformatics
lynnlangit / gcp-for-bioinformatics
GCP for Bioinformatics Researchers
bioinformatics bioinformatics-analysis bioinformatics-pipeline bioinformatics-researchers gcp genomics google google-batch nextflow
Language:Jupyter Notebook 220
kpatel427 / YouTubeTutorials
bioinformatics bioinformatics-analysis rna-seq single-cell tutorials youtube
Language:R 216
sumanismcse / Plant-Disease-Identification-using-CNN
Plant Disease Identification Using Convulutional Neural Network
plant-disease cnn machine-learning neural-networks image-analysis image-processing project kaggle python machine-learning-algorithms final-year-project final-project paper-implementations machinelearning convolutional-neural-networks neuralnetwork neural bioinformatics bioinformatics-analysis tensorflow
Language:Python 137
RNAlysis
GuyTeichman / RNAlysis
RNA sequencing analysis software
rna-seq rna-seq-analysis rna-seq-pipeline rnaseq bioinformatics bioinformatics-pipeline bioinformatics-tool bioinformatics-analysis transcriptomics smallrna smallrna-seq gui-application
Language:Python 119
urmi-21 / pyrpipe
Reproducible bioinformatics pipelines in python. Import any Unix tool/command in python.
bioconda bioinformatics bioinformatics-analysis bioinformatics-pipeline conda ncbi-sra python rna-seq rna-seq-pipeline rna-seq-workflows
Language:Python 77
FunGeST / Palimpsest
An R package for studying mutational signatures and structural variant signatures along clonal evolution in cancer.
cancer-genomics genomics visualization r somatic-mutations mutational-signatures structural-variation clonality tumor-heterogeneity tumor-evolution signature-extraction nmf nmf-extraction structural-variant-signatures bioinformatics bioinformatics-analysis cancer-research driver-events
Language:R 68
HuffordLab / NAM-genomes
Detailed bioinformatics scripts and methods used in the NAM genome paper.
bioinformatics-analysis bioinformatics-scripts genome-assembly genomics maize nam
Language:R 67
BioJulia / GenomeGraphs.jl
A modern genomics framework for julia
bioinformatics biology bio julia bioinformatics-analysis genomics genome-sequencing genome-assembly genome-graph genomes
Language:Julia 64
BU-ISCIII / iskylims
is an open-source LIMS (laboratory Information Management System) for Next Generation Sequencing sample management, statistics and reports, and bioinformatics analysis service management.
bioinformatics-analysis lims ngs ngs-analysis ngs-data workflow
Language:Python 62
JhuangLab / BioInstaller
A comprehensive R package to construct interactive and reproducible biological data analysis applications based on the R platform
bioinformatics-analysis ngs-analysis installer-script installer
Language:R 56
twoXes / awesome-structural-bioinformatics
Structural Bioinformatics is awesome. Throw your textbook in the garbage, light the garbage can on fire, and blend the ashes into your cold brew almond milk latte and read this.
molecular-informatics chemistry machine-learning deep-learning cheminformatics biology quantum-chemistry docking protein alphafold protein-structure-prediction awesome-list bioinformatics bioinformatics-pipeline bioinformatics-analysis proteomics genomics genetics genome-alignment protein-structure
Language:Python 56
ebi-jdispatcher / webservice-clients
A collection of Web Service Clients to consume EBI's Job Dispatcher tools via REST APIs
bioinformatics-analysis bioinformatics-tool webservice-client
Language:Perl 49
BioContainers / specs
BioContainers specifications
specifications docker biocontainers-specification biocontainers bioinformatics bioinformatics-containers biocontainers-architecture rkt bioinformatics-analysis
47
uc-bd2k / GREIN
GREIN : GEO RNA-seq Experiments Interactive Navigator
rna-seq geo bioinformatics-pipeline bioinformatics-analysis rna-seq-pipeline rna-seq-data rna-seq-analysis graphical-interface r shiny-apps gene-expression-omnibus interactive-visualizations interactive-analysis processing geo-data-processing grein gene-expression
Language:HTML 47
bobeobibo / phigaro
Phigaro is a scalable command-line tool for predicting phages and prophages
bioinformatics bioinformatics-tool bioinformatics-pipeline bioinformatics-analysis biological-data-analysis phage phages prophage genomics genomic-data-analysis genomic-regions
Language:HTML 46
greenelab / multi-plier
An unsupervised transfer learning approach for rare disease transcriptomics
bioinformatics-analysis gene-expression-signatures machine-learning multiplier plier rare-diseases analysis methodology dataset
Language:HTML 42
bystrogenomics / bystro
Bystro genetic analysis (annotation, filtering, statistics)
genomics genomics-search bioinformatics bioinformatics-pipeline bioinformatics-analysis bioinformatics-databases bioinformatics-algorithms bioinformatics-scripts
Language:Perl 40
pyladies-brazil / grupo-estudo-bioinformatica
Repositório do grupo de estudo de Bioinformática da rede de comunidades das PyLadies Brasil.
bioinformatics bioinformatics-pipeline bioinformatics-analysis biopython rosalind estudo
Language:Jupyter Notebook 40
xqwen / fastenloc
Colocalization analysis of genetic association signals
bioinformatics bioinformatics-analysis genetic-association-analysis integrative-analysis colocalization
Language:C++ 40
imminfo / tcr
[DEPRECATED, see https://immunarch.com/] tcR: an R package for immune receptor repertoire advanced data analysis.
immunoinformatics immunology tcr data-analysis ig tcr-repertoire ig-repertoire bioinformatics bioinformatics-analysis
Language:R 36
brianyiktaktsui / Skymap
High-throughput gene to knowledge mapping through massive integration of public sequencing data.
bioinformatics-pipeline bioinformatics-analysis bioinformatics-scripts big-data
Language:Jupyter Notebook 31
nasqar / NASQAR
NASQAR: A web-based platform for High-throughput sequencing data analysis and visualization
nasqar bioinformatics bioinformatics-analysis rna-seq single-cell shiny-apps web-application docker deseq2 seurat
Language:HTML 29
cancerit / cgpBigWig
BigWig manpulation tools using libBigWig and htslib
bigwig htslib coverage bioinformatics bioinformatics-analysis libbigwig
Language:C 28
pierrepo / PBxplore
A suite of tools to explore protein structures with Protein Blocks :snake:
python protein structure bioinformatics-analysis
Language:Python 28
team-rosalind-project
Team-Rosalind / team-rosalind-project
This is the main repository for the HackBio'2020 Virtual Internship Experience ❤️
bioinformatics computational-biology bioinformatics-analysis internship-task internship internship-challenge hackbio team-rosalind
Language:Shell 24
sequencework
fomightez / sequencework
programs and scripts, mainly python, for analyses related to nucleic or protein sequences
bioinformatics bioinformatics-analysis bioinformatics-scripts dna genomics list lists protein-sequences python rna
Language:Python 22
dvklopfenstein / ReactomePy
Explore biomolecular pathways in Reactome from the command-line or a Python script
reactome reactome-pathway biological-networks molecular-biology pathway-enrichment-analysis pathway-analysis biotechnology biotech bioinformatics bioinformatics-pipeline bioinformatics-analysis bioinformatics-scripts bioinformatics-tool pathway-models protein-protein-interaction
Language:Python 21
mjDelta / yolo2-keras
detecting Red Blood Cell with yolov2
detection yolov2 object-detection rbc-datasets bioinformatics-analysis
Language:Jupyter Notebook 19
robinvanderlee / positive-selection
Scripts and procedures for detecting positively selected genes and codons in primates
bioinformatics bioinformatics-pipeline bioinformatics-scripts bioinformatics-analysis computational-biology evolution comparative-genomics positive-selection primates genetics sequence-alignment genomics genomes genome-analysis codeml immunity ensembl
Language:Perl 19
SGBC / galaksio
An easy-to-use way for running Galaxy workflows.
bioinformatics bioinformatics-analysis galaxy easy-to-use ngs workflow docker reproducible-research science user-friendly workflows
Language:JavaScript 19
sunyumail93 / PipeRNAseq
A comprehensive pipeline for RNAseq data analysis
rnaseq-pipeline transcriptome-analysis bioinformatics rnaseq bioinformatics-analysis bioinformatics-pipeline gene-expression rna rna-seq-analysis rna-sequencing
Language:Shell 19
dohlee / snakemake-wrappers
:snake: Snakemake wrappers for bioinformatics.
bioinformatics reproducible-research snakemake-workflows snakemake bioinformatics-analysis wrapper snakemake-wrappers
Language:Python 18
chgibb / PHAT
Pathogen-Host Analysis Tool - A modern Next-Generation Sequencing (NGS) analysis platform
ngs alignment visualization analysis pathogen host next-generation-sequencing circos circos-graphs circos-plot snps quality-control bioinformatics bioinformatics-analysis bioinformatics-tool dna phat bam bam-files electron
Language:TypeScript 17
nilesh-tawari / ChronQC
Manuscript describing ChronQC is now available online in Bioinformatics
bioinformatics bioinformatics-analysis bioinformatics-data ngs python qc quality-control visualization
Language:HTML 17
CodonU
SouradiptoC / CodonU
A python project for analysis of codon usage for gene or genome analysis
bioinformatics bioinformatics-analysis bioinformatics-tool codon codon-bias codon-usage genome genome-analysis codonw cai cbi enc rscu tai
Language:Python 16