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ensembl

Here are 55 public repositories matching this topic...

pyGeno

tariqdaouda / pyGeno

Personalized Genomics and Proteomics. Main diet: Ensembl, side dishes: SNPs

Updated Sep 16, 2021
Python

genomepy

vanheeringen-lab / genomepy

genes and genomes at your fingertips

python genome ensembl bioconda ucsc ncbi

Updated Sep 19, 2022
Python

Ensembl / ensembl-hive

EnsEMBL Hive - a system for creating and running pipelines on a distributed compute resource

mysql python java docker pipeline sqlite perl docker-swarm postgresql slurm sge htcondor lsf ehive ensembl high-performance-computing pbs-pro workflow-management-system pbspro

Updated Aug 2, 2022
Perl

Ensembl / ensembl-compara

The Ensembl Compara Perl API and SQL schema

mysql api bioinformatics database perl ensembl comparative-genomics

Updated Sep 28, 2022
Perl

ding-lab / hotspot3d

3D hotspot mutation proximity analysis tool

analysis cancer clustering perl protein-structure ensembl mutations pymol hgnc disease drug drugbank hotspot uniprot blat 3d-proximity proximity-search genomic drugport

Updated Aug 22, 2019
Perl

jorainer / ensembldb

This is the ensembldb development repository.

annotation ensembl bioconductor bioconductor-packages

Updated Sep 17, 2022
R

gawbul / pyEnsemblRest

A client for the Ensembl REST API written in the Python programming language

python bioinformatics rest ensembl rest-client ensembl-rest ensembl-genomes

Updated Oct 6, 2021
Python

robinvanderlee / positive-selection

Scripts and procedures for detecting positively selected genes and codons in primates

bioinformatics genomics genetics evolution computational-biology ensembl bioinformatics-pipeline comparative-genomics genomes genome-analysis sequence-alignment bioinformatics-analysis positive-selection bioinformatics-scripts immunity primates codeml

Updated Nov 14, 2020
Perl

Ensembl / treebest

TreeBeST: Tree Building guided by Species Tree (Ensembl Compara modifications)

reconciliation ensembl neighbor-joining maximum-likelihood phylogeny species-trees gene-trees

Updated Oct 9, 2019
C

related-sciences / ensembl-genes

Extract the Ensembl genes catalog to simple tables

bioinformatics sql human mouse ensembl rat genes

Updated Apr 28, 2022
Jupyter Notebook

stevekm / reference-annotations

Makefile for reference annotations for genes & genomic regions

bioinformatics genome makefile annotations human ensembl gencode genomic-regions reference-data reference-annotation

Updated Jul 25, 2022
Makefile

Ensembl / ensembl-git-tools

A collection of tools which Ensembl uses to work with Git

Updated Jul 12, 2022
Perl

Ensembl / trackhub-registry

Specifications and implementation of the TrackHub registry

registry elasticsearch perl ensembl das ucsc catalyst genome-browser trackhubs

Updated Sep 20, 2022
Perl

pwilmart / fasta_utilities

Utilities for downloading and managing protein FASTA files.

python3 ensembl fasta uniprot ncbi protein-databases

Updated Oct 29, 2021
Python

Ad115 / ICGC-data-parser

To automate data collection from ICGC database.

perl ensembl icgc

Updated Sep 3, 2018
Jupyter Notebook

bigbio / py-pgatk

Python tools for proteogenomics analysis toolkit

python vcf ensembl proteomics mass-spectrometry proteogenomics proteogenomics-analysis-toolkit

Updated Sep 22, 2022
Python

bridgedb / create-bridgedb-genedb

Example of script to query BioMart, parse and create a BridgeDb database

gene ensembl identifier-mapping

Updated Aug 25, 2022
Java

ramiromagno / ensemblr

R client to the Ensembl REST API

ensembl ensembl-rest

Updated Nov 8, 2021
CSS

danilotat / UTR_add_extend_GTF

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.

bioinformatics rna-seq ensembl gtf differential-expression 3-rna-seq

Updated Dec 27, 2020
Python

vizport / vizgvar-v1

Explore protein variation data from the Ensembl API in a simple, yet very effective and easy to use way.

bioinformatics ensembl d3js

Updated Oct 27, 2021
JavaScript

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