Repositories list

• Hare

  Public
  A de novo variant caller leveraging Parabricks GPU accelerated variant calling

  genomicsgeneticsgpu+ 1denovo

  Python

  •

  MIT License

  •0•6•0•0•Updated Nov 4, 2024Nov 4, 2024

• ElGenomaPequeno

  Public
  El genoma pequeño - analysis workflow for "the little genome"

  R

  •

  MIT License

  •1•0•0•0•Updated Sep 25, 2024Sep 25, 2024

• diamonds

  Public
  MIT License

  •0•0•0•0•Updated May 21, 2024May 21, 2024

• EBVDetector

  Public
  MIT License

  •0•0•0•0•Updated May 5, 2024May 5, 2024

• HAT

  Public
  HAT is a set of tools for calling de novo variants from whole-genome sequencing data.

  cpugenomicsgenetics+ 2gpudenovo

  Python

  •

  MIT License

  •0•23•1•0•Updated Mar 21, 2024Mar 21, 2024

• fitDNM

  Public
  Code for running fitDNM genome-wide by using Snakemake

  enrichmentgenomicsgenetics+ 1noncoding

  Python

  •

  MIT License

  •0•4•0•0•Updated Mar 21, 2024Mar 21, 2024

• ACES

  Public
  ACES is a workflow to query small sequences in a large set of genomes. It provides several outputs including BLAST results, a multiple sequence alignment file, a graphical fragment assembly file, and a phylogenetic tree file.

  cloudgenomicsgenetics+ 2conservationcromwell

  Python

  •

  MIT License

  •0•5•0•0•Updated Mar 21, 2024Mar 21, 2024

• WTC-11

  Public
  WTC-11 Genome Cell Line Analysis

  genomecellwgs+ 3wtc-11auts2linkedreads

  MIT License

  •0•0•0•0•Updated Feb 19, 2024Feb 19, 2024

• 3D-CLUMP

  Public
  Software to test for clustering of missense variants in 3D protein structures.

  genomicsclusterstructure+ 4proteinproteomicscase-controlmissense

  Python

  •

  MIT License

  •0•1•0•0•Updated Feb 15, 2024Feb 15, 2024

• Revio_N2A

  Public
  TNTurnerLab Code for Revio Neuro-2a paper

  genomicsgeneticsmethylation+ 5pacbiocellsvariationcell-linesrevio

  Shell

  •

  MIT License

  •0•0•0•0•Updated Feb 15, 2024Feb 15, 2024

• HT22_genome_epigenome_functional_genomics_project

  Public
  hi-crnaseqpacbio+ 5cellsarimawgsilluminacell-lines

  HTML

  •

  MIT License

  •0•3•0•0•Updated Feb 13, 2024Feb 13, 2024

• clustering_in_cancer_vs_ndd_paper

  Public
  R

  •

  MIT License

  •0•1•0•0•Updated Feb 4, 2024Feb 4, 2024

• Tortoise

  Public
  Tortoise is the CPU workflow of the HAT https://github.com/TNTurnerLab/HAT tools.

  cpugenomicsgenetics+ 1denovo

  Python

  •

  MIT License

  •0•5•0•0•Updated Nov 9, 2023Nov 9, 2023

• PYRUS

  Public
  PYRUS is a plotting tool that uses tabix files to create line graphs from bed file data. Utilization of PYRUS includes having a quick plotter for copy number variation within a given chromosomal range of a referenced bed file.

  genomicsgeneticsplot+ 4wgscnvcnv-plotcopy-number-variant

  R

  •

  MIT License

  •0•3•0•0•Updated Sep 18, 2023Sep 18, 2023

• acorn

  Public
  acorn is an R package that examines various features of de novo variants including subsetting DNVs by individual, variant type, or genomic region; calculating features including variant change counts, lengths, and presence/absence at CpG sites; and characteristics of parental age and number of DNVs.

  rgenomicsgenome+ 5variantssnvdenovoindelmnv

  R

  •

  MIT License

  •0•6•0•0•Updated May 18, 2023May 18, 2023

• wdl_workflows

  Public
  WDL

  •

  MIT License

  •0•0•0•0•Updated Jul 20, 2022Jul 20, 2022

• GPU_accelerated_de_novo_workflow

  Public
  HARE is the GPU workflow of the HAT https://github.com/TNTurnerLab/HAT tools.

  genomicsgeneticsgpu+ 1denovo

  Shell

  •

  MIT License

  •0•4•0•0•Updated Aug 5, 2021Aug 5, 2021