functional-genomics

There are 1 repository under functional-genomics topic.

• yupenghe / methylpy

  WGBS/NOMe-seq Data Processing & Differential Methylation Analysis

  bioinformatics-pipelineepigeneticsdna-methylationnome-seqfunctional-genomicsdifferential-methylationnome-seq-datacalling-dmrs
  Language:Python 130

• churchmanlab / genewalk

  GeneWalk identifies relevant gene functions for a biological context using network representation learning

  functional-genomicsmachine-learning-algorithm
  Language:Python 128

• cailab-tamu / scTenifoldKnk

  R/MATLAB package to perform virtual knockout experiments on single-cell gene regulatory networks.

  gene-knockoutvirtual-knockout-experimentsgene-functionfunctional-genomicsgene-regulatory-network
  Language:R 34

• tlnagy / Crispulator.jl

  ✂️ Pooled CRISPR screen optimization tool

  functional-genomicsjuliasimulationgenomics
  Language:Jupyter Notebook 16

• IBM / omxware-getting-started

  Examples to get started with IBM Functional Genomics Platform

  covid19functional-genomicsgenomicsgetting-started-functional-genomicsgetting-started-omxwareibmjupyter-notebooksomxware
  Language:Jupyter Notebook 15

• fungenomics / HGG-oncohistones

  Analysis for "K27M in canonical and noncanonical H3 variants occurs in distinct oligodendroglial cell lineages in brain midline gliomas" (Jessa et al, Nature Genetics, 2022)

  brain-developmentcancercancer-genomicsepigenomicsfunctional-genomicsr-markdownreproducible-paperreproducible-researchsingle-cell
  Language:HTML 5

• m-jahn / TnSeq-pipe

  TnSeq data processing workflow

  pythonnext-generation-sequencingpipelinefunctional-genomicsbioinformatics-pipeline
  Language:Perl 5

• TheJacksonLaboratory / geneweaver-docs

  Documentation site for the Geneweaver project.

  documentation-sitefunctional-genomicsgeneweavergenomic-data-sciencegenomicsmarkdownmkdocs
  4

• TheJacksonLaboratory / geneweaver-client

  A client library for the integration and analysis of heterogeneous functional genomics data.

  analyticsfunctional-genomicsgenomics
  Language:Python 3

• gxelab / scripts

  In-house scripts for data processing and analysis

  functional-genomicsevolutionecologybioinformatics
  Language:Python 2

• qslin / Bulk-Segregation-Analysis

  Developed by Qiaoshan Lin in Yaowu Yuan Lab

  biologybulk-segregation-analysisfunctional-genomics
  Language:Shell 2

• TheJacksonLaboratory / geneweaver-core

  The core library for GeneWeaver projects.

  analysisfunctional-genomicsgenomicsschemasgenomic-data-science
  Language:Python 2

• TheJacksonLaboratory / geneweaver-db

  The GeneWeaver database interaction code.

  functional-genomicsgeneweavergenomic-data-sciencegenomicssql
  Language:Python 2

• anuraglimdi / tnseq-essential-genes

  Predicting gene essentiality from transposon insertion sequencing (TnSeq) genomics data with machine learning

  functional-genomicsmachine-learningtransposon-mutagenesis
  Language:Jupyter Notebook 1

• dzyim / awesome-regulatory-genomics-papers

  A curated list of regulatory genomics papers and resources.

  awesomeepigeneticsfunctional-genomicsgene-expressiongeneticslistsregulatory-genomics
  1

• hessJ / FLEET

  Functional LD-interval EnrichmEnt Test -- biological interpretation of GWAS signals

  genomicsgwasfunctional-genomicscommon-variantscomplex-disorderspolygenic
  Language:R 1

• m-jahn / CRISPRi-lib-pipe

  Pipeline to process CRISPRi library sequencing data

  pythonnext-generation-sequencingpipelinebioinformatics-pipelinefunctional-genomics
  Language:R 1

• m-jahn / rebar

  Ralstonia eutropha BarSeq analysis

  pythonpipelinenext-generation-sequencingbioinformatics-pipelinefunctional-genomics
  Language:Perl 1

• TheJacksonLaboratory / geneweaver-aon

  Ortholog/homolog mapping for Geneweaver

  functional-genomicsgenomicshomologsorthologsgeneweavergenomic-data-science
  Language:Python 1

• TheJacksonLaboratory / geneweaver-api

  A system for the integration and analysis of heterogeneous functional genomics data.

  analysisfunctional-genomicsgenomicsgenomic-data-science
  Language:Python 1

• hanruizhang / zhanglab

  Lab website

  zhang-laboratorycolumbia-universitymacrophagesfunctional-genomicscardiovascularmetabolism
  Language:HTML 0

• hqcasanova / arrayexpress-search

  Responsive single-page search app for EMBL's Array Express archive. Written in Backbone + Marionette.

  functional-genomicsembl-ebiresponsivesingle-page-appjavascriptwebpackmarionettearrayexpresssearchhqcasanova
  Language:JavaScript 0

• mragsac / PhD-Dissertation

  Files used to generate Michelle Franc Ragsac's Ph.D. Dissertation

  bioinformaticsdevelopmental-biologyenhancersfunctional-genomicsphd-dissertationphd-thesisnotochord
  Language:TeX 0

• almeidasilvaf / planttfhunter

  An R package to identify plant transcription factors from protein sequence data and classify them in families

  rstatstranscription-factorsprotein-domainsgene-familiesfunctional-genomicshidden-markov-modelsplant-genomicsplants
  Language:R

• LRPatel1 / SLIDER

  SLIDER: Scoring Soriting Screens with Laplace and Differential Rank

  crispr-screen-analysisfunctional-genomicsfluorescence-activated-cell-sorting
  Language:R

• sivkri / Schizosaccharomyces-pombe-Chip-seq-analysis

  After getting the bed file from the Peak calling, we can annotate and create all downstream analysis of two sets of data

  chip-seqchip-seq-analysischip-seq-datachip-seq-pipelineepigeneticsepigenetics-datafunctional-genomicsregulatory-elementstranscription-factorsschizosaccharomyces-pombe
  Language:R