genomics-analysis | Topic | Ecosyste.ms: Repos

Topic: "genomics-analysis"

TimD1/vcfdist

vcfdist: Accurately benchmarking phased variant calls

Language: C++ - Size: 85.8 MB - Last synced at: 7 days ago - Pushed at: 7 days ago - Stars: 80 - Forks: 7

lynnlangit/TeamTeri

Bioinformatics on GCP, AWS or Azure

Language: Shell - Size: 135 MB - Last synced at: 7 days ago - Pushed at: about 2 months ago - Stars: 56 - Forks: 17

tobiasrausch/vc

A tutorial on structural variant calling for short read sequencing data

Language: R - Size: 111 KB - Last synced at: 10 days ago - Pushed at: 6 months ago - Stars: 32 - Forks: 2

epifluidlab/FinaleToolkit

FinaleToolkit is a package and standalone program to extract fragmentation features of cell-free DNA from paired-end sequencing data.

Language: Python - Size: 82.9 MB - Last synced at: 11 days ago - Pushed at: 11 days ago - Stars: 22 - Forks: 7

crisprVerse/crisprDesign

Comprehensive design of CRISPR gRNAs for nucleases and base editors

Language: R - Size: 5.93 MB - Last synced at: 17 days ago - Pushed at: about 2 months ago - Stars: 22 - Forks: 6

jessicabonnie/dandd

Tool to estimate deltas for sequence sets and answer questions about relative contribution

Language: Python - Size: 1.75 MB - Last synced at: 29 days ago - Pushed at: 29 days ago - Stars: 21 - Forks: 1

IPK-BIT/divbrowse

A web application for interactive visualization and exploratory data analysis of variant call matrices

Language: Svelte - Size: 2.6 MB - Last synced at: 13 days ago - Pushed at: almost 2 years ago - Stars: 19 - Forks: 3

oh-jinwoo94/gkm-align

gapped-kmer based whole genome alignment software

Language: C++ - Size: 231 MB - Last synced at: 3 months ago - Pushed at: 3 months ago - Stars: 7 - Forks: 0

DZeevi-Lab/TinkerHap

Read-Based Phasing Algorithm with Integrated Multi-Method Support for Enhanced Accuracy

Language: Python - Size: 28.3 KB - Last synced at: 2 days ago - Pushed at: 2 months ago - Stars: 4 - Forks: 0

tobiasrausch/sv

Structural variant calling tutorial using long-reads.

Language: R - Size: 55.7 KB - Last synced at: 20 days ago - Pushed at: 3 months ago - Stars: 4 - Forks: 0

BenjaminNarhMadey/R-Codes-for-Plant-Breeding-Genetics-Statistics-and-Genomics

This repository serves as a valuable resource for individuals engaged in data exploration, statistical analysis, and research within the domains of plant breeding, genetics, statistics, and genomics. The purpose of this repository is to share a collection of R codes that can be utilized by others for their own data analysis projects

Language: R - Size: 35.2 KB - Last synced at: about 1 year ago - Pushed at: almost 2 years ago - Stars: 3 - Forks: 0

jacksonhturner/orthogarden

ML phylogenetic inference for non-model organisms with short reads & assemblies

Language: Python - Size: 13.8 MB - Last synced at: about 1 month ago - Pushed at: about 1 month ago - Stars: 2 - Forks: 0

mrdanieleze/Genomic-Sequence-Comparison-Code-GSCC-

This repository houses the Genomic Sequence Comparison Code (GSCC), a collection of Python scripts designed for genomic sequence analysis. Whether you're comparing suspected sequences with known reference sequences or delving into bioinformatics, GSCC provides versatile tools for pairwise alignment. Feel free to explore!

Language: Python - Size: 26.4 KB - Last synced at: about 1 year ago - Pushed at: about 1 year ago - Stars: 2 - Forks: 0

leonardoLavagna/TCGA-PRAD 📦

Precision Medicine Study of Prostate Adenocarcinoma Data

Language: Jupyter Notebook - Size: 52 MB - Last synced at: almost 2 years ago - Pushed at: almost 2 years ago - Stars: 2 - Forks: 0

kkokay07/pq-genetics

Repository for population genetics and quantitative genetics metrics implementarion and visualization

Language: Jupyter Notebook - Size: 198 KB - Last synced at: 16 days ago - Pushed at: 16 days ago - Stars: 1 - Forks: 0

aomdahl/gleanr_workflow

Sparse factorization framework to integrate GWAS studies and identify shared latent genetic components

Language: R - Size: 54.7 MB - Last synced at: 21 days ago - Pushed at: 21 days ago - Stars: 1 - Forks: 0

giffordlabcvr/HBV-GLUE

A GLUE project for hepatitis B virus (HBV).

Language: JavaScript - Size: 7.89 MB - Last synced at: 5 months ago - Pushed at: 5 months ago - Stars: 1 - Forks: 1

DrStef/Machine-Learning-and-Digital-Signal-Processing-for-Genome-Classification

Supervised classification of various species DNA sequences using FFT and Machine Learning.

Language: Jupyter Notebook - Size: 20.4 MB - Last synced at: 8 months ago - Pushed at: 8 months ago - Stars: 1 - Forks: 0

sscansan/genomics_and_GWAS_tutorials

Analysis of SNP variants, derived from chip array genotyping and HTS sequencing

Language: HTML - Size: 26.6 MB - Last synced at: 12 months ago - Pushed at: 12 months ago - Stars: 1 - Forks: 0

ngodron/SNPs_and_clones

Genetic Algorithm implementation to study haplotypes of genomic features

Language: R - Size: 247 KB - Last synced at: over 1 year ago - Pushed at: over 1 year ago - Stars: 1 - Forks: 0

madsondeluna/getvar_mvp

O GetVar é útil para o auxílio a diagnósticos genéticos e aconselhamentos, permitindo decisões baseadas em dados com respaldo científico, otimizando tempo e servindo de suporte ao sistema de decisão clínico.

Language: HTML - Size: 350 KB - Last synced at: 3 months ago - Pushed at: 3 months ago - Stars: 0 - Forks: 0

EpistemologistIoneuroscientist/MedicrossSims-GamingCards

1. "A collection of gaming cards for medical simulation and education, combining healthcare expertise with engaging gameplay mechanics."

Size: 2.93 KB - Last synced at: 4 months ago - Pushed at: 4 months ago - Stars: 0 - Forks: 0

kvshakthi/Colab-AlphaFold2-Usage-Repository

AlphaFold2_Usage_Repository

Language: Jupyter Notebook - Size: 5.45 MB - Last synced at: 5 months ago - Pushed at: 5 months ago - Stars: 0 - Forks: 0

pritampanda15/ML-Genomics

Machine learning in Genomics

Language: Jupyter Notebook - Size: 6.25 MB - Last synced at: 8 days ago - Pushed at: 5 months ago - Stars: 0 - Forks: 0

jakubovciak/Vertebrate_Head

Scripts used for analysis of single cell RNA-Seq data presented in Markos 2024 paper.

Language: R - Size: 96 MB - Last synced at: 6 months ago - Pushed at: 6 months ago - Stars: 0 - Forks: 0

johnvusich/johnvusich.github.io

My personal website

Language: HTML - Size: 1.35 MB - Last synced at: 8 months ago - Pushed at: 8 months ago - Stars: 0 - Forks: 0

parthian-sterlet/antinoise

Extraction of genomic background set of DNA sequences for a given foreground set of sequences for subsequent de novo motif discovery

Language: C - Size: 9.1 MB - Last synced at: 9 months ago - Pushed at: 9 months ago - Stars: 0 - Forks: 0

lasseignelab/230227_EJ_MouseBrainIsoDiv

This repository is the current repository for our Jones et al. 2024 manuscript titled Long-read RNA sequencing identifies region- and sex-specific C57BL/6J mouse brain mRNA isoform expression and usage.

Language: R - Size: 53.7 MB - Last synced at: 2 months ago - Pushed at: 10 months ago - Stars: 0 - Forks: 0

asntech/2024-04-25-rutgers

Genomics Carpentries Workshop at Rutgers University, April 25-26, 2024

Language: HTML - Size: 2.16 MB - Last synced at: about 1 year ago - Pushed at: about 1 year ago - Stars: 0 - Forks: 0

zeropin/TECookbook

R package for annotating and parsing transposable elements-associated data

Language: R - Size: 189 KB - Last synced at: about 1 year ago - Pushed at: about 1 year ago - Stars: 0 - Forks: 0

lasseignelab/230227_JW_Setbp1Manuscript

Framework for investigation of cell-type-specific regulation and expression in rare disease

Language: R - Size: 221 MB - Last synced at: 2 months ago - Pushed at: over 1 year ago - Stars: 0 - Forks: 1

sablokgaurav/ruby_on_rails_app_for_genomic_trait_analysis_genome

This repository contains a complete ruby on rails application for the development and analysis of genomic traits for the sequenced genomes and how it can be deployed for the machine learning. It integrates sqlite3 and postgresql as a backhand and uses bootstrap for the custom appearance.

Size: 1.95 KB - Last synced at: over 1 year ago - Pushed at: over 1 year ago - Stars: 0 - Forks: 0