genomics-analysis

There are 0 repository under genomics-analysis topic.

• TimD1 / vcfdist

  vcfdist: Accurately benchmarking phased variant calls

  alignmentgenomicsgenomics-analysisvariant-callingwhole-genome-sequencingbioinformaticsvcf
  Language:C++ 68

• lynnlangit / TeamTeri

  Bioinformatics on GCP, AWS or Azure

  cancer-genomicsvariantsgenome-analysisgenome-sequencinggcpawsvariant-callsbioinformaticsgenomics-analysisgatkazure
  Language:Shell 52

• jessicabonnie / dandd

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

  genomicsgenomics-analysissequence-analysissimilarity-measures
  Language:Python 20

• crisprVerse / crisprDesign

  Comprehensive design of CRISPR gRNAs for nucleases and base editors

  bioconductorbioconductor-packagecrisprcrispr-cas9crispr-designcrispr-targetgenomics-analysisgrnagrna-sequencegrna-sequencessgrnasgrna-design
  Language:R 16

• IPK-BIT / divbrowse

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

  bioinformaticsdata-visualizationvisualizationgenomicsgenomics-analysisgenomics-datagenomics-visualizationgff3principal-component-analysisvcf
  Language:Svelte 15

• epifluidlab / FinaleToolkit

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

  bioinformaticsbioinformatics-toolcomputational-biologygenomicsgenomics-analysis
  Language:Python 7

• 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

  breedinggenomics-analysisgenomics-visualizationphenotypingplantstatistics
  Language:R 4

• 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!

  bioinformaticsbiopythongenomic-data-analysispython3bioinformatics-scriptsbioinformatics-toolcomputational-biologydna-sequencesgenomics-analysispairwise-alignmentrna-sequencingsequence-alignment
  Language:Python 2

• giffordlabcvr / HBV-GLUE

  A GLUE project for hepatitis B virus (HBV).

  drug-resistancegenomicshepatitisbioinformaticssequence-analysissequence-annotationvirus-evolutiongenomics-analysis
  Language:JavaScript 1

• ngodron / SNPs_and_clones

  Genetic Algorithm implementation to study haplotypes of genomic features

  genomics-analysismetaheuristicsr-programming
  Language:R 1

• sscansan / genomics_and_GWAS_tutorials

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

  bioinformaticsbiologydata-sciencegenomicsgenomics-analysisgenomics-visualization
  Language:HTML 1

• zeropin / TECookbook

  R package for annotating and parsing transposable elements-associated data

  genomics-analysis
  Language:R 1

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

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

  cross-correlationdigital-signal-processingfastafftgenome-classificationgenomicsgenomics-analysismachine-learningnumerical-representation-of-dna-sequencespythonscipy-signalsklearn
  0

• JordyCoolen / RC-PCR_CLASSIFIER

  Reverse Complement PCR (RC-PCR_ Classification pipeline.

  16s16s-rrnabioinformaticsbioinformatics-pipelinegenomics-analysis
  Language:Python 0

• lasseignelab / 230227_JW_Setbp1Manuscript

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

  genomics-analysismendelian-geneticsnetwork-biologyrare-diseasesingle-nuclei-rna-sequencingtranslational-research
  Language:R 0

• OrangePomeranian / genomics_project

  Genomic Analysis of Canis lupus with the use of Genomic Maps and Philogenetic Trees

  bioinformaticsgenome-mappinggenomics-analysisgenomics-visualizationphilogenetic-trees
  0

• Orpowell / NLR-Assembler

  NLR-Assembler is a command line tool for improving RenSeq Assemblies using linked-read sequencing by 10x Genomics.

  bioinformatics-pipelinebioinformatics-toolgenomics-analysisplant-genomics
  Language:Python 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

  bioinformaticschip-seq-analysisde-novo-motif-searchgenome-bias-motifs-supressiongenomics-analysis
  Language:C 0

• AlirezaT99 / ML-in-Omics

  Machine Learning in Omics: Integration of Metagenomics and Metabolomics.

  genomics-analysismachine-learningmetabolomicsmetagenomics
  Language:Jupyter Notebook

• asntech / 2024-04-25-rutgers

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

  bioinformaticscommand-linegenomicsgenomics-analysis
  Language:HTML

• chasesmith15 / Potamilus_EE

  Data for Smith et al. 2021 in Ecology and Evolution

  data-sciencegenomicsgenomics-analysisgenomics-visualization
  Language:R

• jkissing / jcklab-public

  Kissinger Research Group Shared Code

  genomics-analysisgenomics-datagenomics-visualization

• lajd / Genomic-Data-Science-JHU

  Genomics data science specialization (John Hopkins University)

  courseragenomicsdata-sciencegenomics-analysisjohns-hopkins-university
  Language:Python

• 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.

  alternative-splicinggenomics-analysisisoform-diversityneurosciencernaseqsex-differenceslong-read-sequencingnanopore-sequencinggene-expression
  Language:R

• luisagmazuca / Post-Genomics

  This repository contains the file codes used to complete the final project for the course Post Genomic Analysis.

  amlcancergenomics-analysisgenomics-datastatistical-analysis
  Language:Python

• pipaber / TxDb.Carabica.NCBI

  This is a TxDb package created for Coffea arabica (coffee).

  bioconductorgenomics-analysisr
  Language:R

• ranjanjs34 / weap

  Automating WES Data analysis (primarily of Cancer).

  genomics-analysiswhole-exome-sequencing
  Language:C

• recanoy / Coursera_PythonForGenomicDataScience_FinalExam

  Final Exam for Coursera's Python for Genomic Data Science course

  genomics-analysis
  Language:Jupyter Notebook

• sivkri / Deseq2-Annotated-Data-Processing

  Filter DE genes based on log2Folchange, FDR value or both

  fdr-benjaminifdrstatisticsbioinformaticsdata-filteringdata-processinggenomicsgenomics-analysis
  Language:Python

• sivkri / exon-bed-generator

  Exon BED Generator: A script to download, process, and generate a BED file with exon coordinates for Homo sapiens from a GTF file

  beddata-processinggenomicsgenomics-analysisgtfhomo-sapiensbed-fileexon-annotationgtf-file
  Language:Shell

• sivkri / rna-Seq-ScaledLengthTPM

  To perform RNA-Seq data analysis and calculate length-scaled transcripts per million (TPM) values using the Salmon tool and the GenomicFeatures package in R.

  tpmtranscriptome-assemblygene-expressiongenomicsgenomics-analysisrna-seqrna-seq-analysisrnaseqtranscripts-per-million
  Language:R

• zbates1 / zb-deepmind-terminator

  Using NVIDIA Deepmind's Nucleotide Transformer to generate embeddings for yeast genomes.

  deep-learninggenomics-analysisyeast
  Language:Python