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dellytools /delly

DELLY2: Structural variant discovery by integrated paired-end and split-read analysis

tumor cancer-genomics germline structural-variation svs delly-users genomic rearrangement delly sv-discovery

UpdatedFeb 28, 2025
C++

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

UpdatedMar 31, 2023
Perl

dputhier /pygtftk

A python package and a set of shell commands to handle GTF files

bioinformatics gene rna-seq genomics cds ngs tts transcript bigwig chip-seq gtf bed exon tss dna-sequences genomic intron splicing

UpdatedJun 18, 2024
Python

TheJacksonLaboratory /JAX-CNV

Official code repository for JAX-CNV

ngs cnv genomic bioinformatics-algorithms

UpdatedJan 16, 2020
C++

bcgsc /pori_graphkb_client

Front-end web client for the GraphKB project

graphdb knowledge-base genomic personalized-medicine pori

UpdatedFeb 25, 2025
TypeScript

cobilab /geco2

An improved compression tool for DNA sequences

computational-biology dna data-compression dna-sequences genomic dna-compression

UpdatedMar 22, 2024
C

kyegomez /Prometheus

Welcome to Prometheus, the revolutionary AI model that allows you to generate DNA sequences for any creature you can imagine. Whether it’s a pink panda, an elephant-sized turtle, or a completely new lifeform from your wildest dreams, Prometheus decodes the mystery of biology and synthesizes genetic blueprints with precision.

ai genomics ml genes ssm mamba genomic rnns genomics-data llms bioml gene-generation

UpdatedMar 17, 2025
Python

HolubievIllya /Command-Line-Tools-for-Genomic-Data-Science

This repository contains the answers for coursera 's "Command Line Tools for Genomic Data Science"

data tools genomics line coursera quiz genes command-line-tool genomic coursera-course gen coursera-assignment genomics-data coursera-solutions coursera-assignment-solution course-answers coursera-answers

UpdatedAug 6, 2023

danangcrysnanto /bovine-graphs-mapping

Comparison of sequencing read mapping to pangenome graphs

bioinformatics graphs bioinformatics-pipeline bioinformatics-scripts genomic

UpdatedApr 23, 2020
Jupyter Notebook

HolubievIllya /Bioconductor-for-Genomic-Data-Science

This repository contains the answers for coursera 's "Bioconductor for Genomic Data Science"

science data-science data r tools genomics coursera bioconductor quiz genomic coursera-course gen coursera-assignment genomics-data coursera-solutions coursera-assignment-solution course-answers coursera-answers

UpdatedAug 13, 2023

caravagn /evoverse.datasets

Datasets and analysis results released with the REVOLVER package for Cancer Evolution.

sequencing dataset somatic-mutations genomic revolver cancer-evolution

UpdatedFeb 11, 2020
R

MR6996 /spark-bwt

A tool for calculating the Burrows-Wheeler transform (BWT) in a Map-Reduce fashion on Apache Spark Framework.

spark array apache indexing map-reduce suffix bwt genomic distribuited

UpdatedDec 11, 2020
Java

CSB5 /driver_evaluation

cancer genomic driver-gene-prediction

UpdatedOct 23, 2019
Perl

FJBiocode /ShortSequenceRastreator

Short Sequence Rastreator allows genetic diversity analysis and preparation of input files for other softwares such as STRUCTURE, DARwin and SPAGeDi.

diversity ssr structure dna sequence marker locus genetic loci genomic diploid rosaceae input-files pyrus spagedi triploid

UpdatedJul 28, 2021
Python

JianlinHe /sequencingData_track_R

The R code was developed to draw the genomic track of signals for next-generation sequencing data.

visualization bioinformatics r next-generation-sequencing genomic genomics-visualization

UpdatedMar 1, 2019
R

mutalyzer /crossmapper

HGVS numbering conversions

map convert position coding genomic coordinate hgvs mutalyzer noncoding

UpdatedNov 21, 2021
Python

HighlanderLab /nlubanga_tea_breeding_gs

Simulation of tea breeding programmes using genomic selection

breeding tea selection genomic

UpdatedJul 16, 2023
R

cumbof /TCGA2BED

The Cancer Genome Atlas Data Extraction and Conversion Tool

converter repository tcga clinical bed genomic gmql

UpdatedApr 2, 2020
Java

italo-granato /BGGE

Package to genomic prediction focused on GE genomic models

statistics prediction bayesian-inference genomic ge-genomic-models genotype-by-environment

UpdatedNov 26, 2018
R

tushardave26 /SimVar

Simulate Variants for provided genomic coordinates

simulation variants genomic simulation-of-variants

UpdatedFeb 21, 2022
Python

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