bioinformatics-data

There are 16 repositories under bioinformatics-data topic.

nicgirault / circosJS
d3 library to build circular graphs
d3js circos circos-graphs javascript circular bioinformatics bioinformatics-data big-data bigdata
Language:JavaScript 502
kmhernan / awesome-bioinformatics-formats
Curated list of bioinformatics formats and publications
bioinformatics bioinformatics-data formats awesome-list
52
MultiQC / test-data
Test data for MultiQC.
multiqc test-data bioinformatics-data bioinformatics
Language:HTML 19
Protein-feature-extraction
jithin8mathew / Protein-feature-extraction
Python code to extract features from Protein sequences for Machine Learning/Deep Learning
protein-feature-extraction machine-learning protein-sequences biopython deep-learning linux extract-features fasta feature-extraction windows bioinformatics-pipeline bioinformatics-data bioinformatics-analysis bioinformatics
Language:Python 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
genouest / biomaj
BioMAJ
python bioinformatics bioinformatics-data downloader open-source
Language:Python 12
BioJulia / ReadDatastores.jl
Datastores for reads, not your papa's FASTQ files.
biojulia sequencing files storage format bioinformatics bioinformatics-data biology genomics genomics-data fastq fastq-files fastq-format sam-bam sam-file sam-files bam-files bam-format
Language:Julia 11
cancervariants / therapy-normalization
Services and guidelines for normalizing drug and other therapy terms
bioinformatics precision-medicine bioinformatics-data
Language:Python 10
BD2KGenomics / bioapi-examples
Code examples for working with web based bioinformatics APIs
ga4gh python-notebooks ga4gh-server bioinformatics-data python-scripts
Language:Jupyter Notebook 9
public_notebooks
Bio2Byte / public_notebooks
Repository of Jupyter Notebooks created by the Bio2Byte group
bioinformatics proteins alphafold dynamine agmata disomine efoldmine biology bioinformatics-data jupyter-notebook
Language:Jupyter Notebook 9
gversmee / dbgap2x
bioinformatics bioinformatics-data bioinformatics-databases bioinformatics-tool dbgap docker-image dockerfile fair r rpackage sra-files sratoolkit
Language:Jupyter Notebook 8
maitreyeepaliwal / Alleropedia-Database-for-Allergens
Metadetabase of 13145 records generated for Allergens with a tabular view of the data. Web interface connected to ease the use, analysis and extraction of data with several added functionalities. Tutorial section added to educate the users of the interface design and features and the database.
allergies allergy allergen-database allergic-diseases biological-database biological-databases database-generation-for-allergens database-generator bioinformatics biology bioinfo bioinformatics-databases metadatabase secondary-database biology-project bioinformatics-data alleropedia data-extraction
Language:HTML 7
emir-munoz / adr-prediction
Supplemental material for the paper "Facilitating Prediction of Adverse Drug Reactions by Using Knowledge Graphs and Multi-Label Learning Models".
bioinformatics-data datasets knowledge-graph machine-learning multilabel research-paper
Language:CSS 4
FatemehGholamzadeh / BWT-on-Gene-Sequence
implementation of Burrows–Wheeler transform on a Gene Sequence - Bioinformatics Course - Fall 2019
bioinformatics bioinformatics-analysis bioinformatics-algorithms bioinformatics-data bwt bwt-transform python python3 machine-learning machine-learning-algorithms machinelearning python-script
Language:Python 4
ePlant_Plant_eFP
BioAnalyticResource / ePlant_Plant_eFP
A data visualization tool to display tissue expression data for Arabidopsis thaliana
data data-visualization arabidopsis-thaliana bioinformatics bioinformatics-tool bioinformatics-data bioinformatics-visualization database arabidopsis
Language:JavaScript 3
biowdl / biowdl-test-data
Reproducible and reusable test data for bioinformatics projects.
biowdl test test-data reproducible reusable bioinformatics bioinformatics-data
Language:Python 3
fg6 / YeastStrainsStudy
Scripts to download the PacBio, ONT and MiSeq datasets used in https://www.nature.com/articles/s41598-017-03996-z and run the pipelines as described in the paper or simply download the final assemblies as generated by the authors.
oxford-nanopore pacbio miseq pipelines yeast bioinformatics-scripts bioinformatics-data
Language:Shell 3
gkoulouras / seq-sec-ratio
A console application for the estimation of the primary and secondary structure's elements. Input should be the FASTA-formatted "ss.txt" file generated by PDB database.
pdb pdb-files ss-txt amino-acids secondary-structure bioinformatics-data bioinformatics-scripts bioinformatics-databases vb-net protein-data-bank protein-sequences protein-secondary-structure bioinformatics
Language:Visual Basic 3
JFresnedo / AmpSeq
A framework for semi-automated analysis of Amplicon Sequencing data
bioinformatics bioinformatics-pipeline bioinformatics-scripts bioinformatics-containers bioinformatics-data singularity-containers singularity-hub
Language:Perl 2
bioinfweb / JPhyloIO
A Java library for event-based reading and writing of different phylogenetic file formats through a common interface
bioinformatics-data phylogenetics io phylogenetic-data nexus nexml phyloxml newick bioinformatics metadata library
Language:Java 1
ggirelli / bioTrackBinner
Binning biological data tracks and producing RDS containing data.tables
binning bioinformatics bioinformatics-data bioinformatics-tool
Language:R 1
gpiemont / pyeutils
Python interface to NCBI Eutils
ncbi pyeutils bioinformatics bioinformatics-tool bioinformatics-data eutils
Language:Python 1
hannahvoelker / Microbiome-graph
Produces a network of given microbiome data
bioinformatics-data graph python r
Language:Python 1
Nekose / ICAP_Crawler
A web crawler which scrapes https://anapatterns.org. Visits each of the IC pattern pages, and collects the related antigens.
iif immunology hep-2-cells bioinformatics-data
Language:Python 1
ams939 / COOP2018
ams939's Academy of Natural Sciences of Drexel University COOP 2018 code repository
ansp biodiversity bioinformatics bioinformatics-data biological-data-analysis coop internship jupyter-notebooks python
Language:Jupyter Notebook 0
gkoulouras / PDB-amino-acid-ratio
A console application for the ration calculation of amino acids from a PDB file.
bioinformatics-analysis bioinformatics-data bioinformatics-scripts pdb pdb-files
Language:Visual Basic 0
HuntsmanCancerInstitute / SBApps
Tools for working with the Seven Bridges bioinformatics platform.
bioinformatics bioinformatics-data cloud-storage genomics seven-bridges
Language:Java 0
mansikath / Fasta-to-Genbank-Converter
A simple Python script using Biopython to convert FASTA files to GenBank format. The script prompts the user for input and output filenames, along with the molecule type (default is DNA). Ensure accurate and annotated GenBank files for your biological sequence data.
bioinformatics-data biopython dna-sequences fasta file-formats genbank genbank-files molecular python python3
Language:Python 0
V-Z / hybseq-course
Materials for course about processing HybSeq data on computing grids
hybseq-data species-trees phylogenomics data-analysis phylogenetic-trees bioinformatics bioinformatics-scripts bioinformatics-analysis bioinformatics-data bash-script grid-computing course learning data-analyses scripting computing shell-scripting metacentrum terminal command-line-tool
Language:TeX 0
akshayparopkari / shell-genomics
Covers the following bash commands cat, chmod, cd, cp, curl, head, history, ls, less, man, mkdir, mv, nano, pwd, rm, tail, wc, wget
aws-cli bash bash-completion bash-script bash-scripting bioinformatics bioinformatics-analysis bioinformatics-data genomic-data-analysis genomics genomics-data hacktoberfest shell shell-scripting shell-scripts
Language:Python
david4096 / sheepdog-exporter
Export metadata from the DCP sheepdog API. 🐑🐑
nihdatacommons bioinformatics-data
Language:Python
PhyloGenetik
gabywald / PhyloGenetik
An old Phylogenetik Project (2007) in JAVA, with (some) phylogeny, bioinformatics algorithms, matrix implementations and comparisons, PAM and BLOSUM (extract from http://gabriel.chandesris.free.fr/projets/Phylogenetik/ )
bioinformatics bioinformatics-algorithms bioinformatics-data bioinformatics-tool biology java javaswing student student-project student-work
Language:Java
hchauvin / fluodilution
Fluorescence dilution/proliferation assay toolkit in R 🔬📊
r biology bioinformatics bioinformatics-tool bioinformatics-analysis bioinformatics-data
Language:R
hidelab / pcxnData
bioconductor bioinformatics-data
illusionic / Protein-protein-Interaction_Classification
A python solution towards classifying different protein-protein interactions among Protein Sequences.
protein-protein-interaction lstm-model classification bioinformatics-data
Language:Python
sensodevices / motor-skills-rehab-research-kit
Contains a sample dataset with rehab sessions of stroke victims and data preparation example
rehabilitation motor-skills rehab rehabilitation-system bioinformatics bioinformatics-data bioinformatics-tool
Language:Jupyter Notebook

bioinformatics-data

nicgirault / circosJS

kmhernan / awesome-bioinformatics-formats

MultiQC / test-data

jithin8mathew / Protein-feature-extraction

nilesh-tawari / ChronQC

genouest / biomaj

BioJulia / ReadDatastores.jl

cancervariants / therapy-normalization

BD2KGenomics / bioapi-examples

Bio2Byte / public_notebooks

gversmee / dbgap2x

maitreyeepaliwal / Alleropedia-Database-for-Allergens

emir-munoz / adr-prediction

FatemehGholamzadeh / BWT-on-Gene-Sequence

BioAnalyticResource / ePlant_Plant_eFP

biowdl / biowdl-test-data

fg6 / YeastStrainsStudy

gkoulouras / seq-sec-ratio

JFresnedo / AmpSeq

bioinfweb / JPhyloIO

ggirelli / bioTrackBinner

gpiemont / pyeutils

hannahvoelker / Microbiome-graph

Nekose / ICAP_Crawler

ams939 / COOP2018

gkoulouras / PDB-amino-acid-ratio

HuntsmanCancerInstitute / SBApps

mansikath / Fasta-to-Genbank-Converter

V-Z / hybseq-course

akshayparopkari / shell-genomics

david4096 / sheepdog-exporter

gabywald / PhyloGenetik

hchauvin / fluodilution

hidelab / pcxnData

illusionic / Protein-protein-Interaction_Classification

sensodevices / motor-skills-rehab-research-kit