TrevorKrabbenhoft

TrevorKrabbenhoft's Stars

• marcpaga/esox

  Language:Python8

• Ensiuc/DMRichr

  A R package and executable for the preprocessing, statistical analysis, and downstream testing and visualization of differentially methylated regions (DMRs) from CpG count matrices (Bismark cytosine reports)

  1

• kiranbandi/synvisio

  SynVisio is an interactive multiscale visualization tool that lets you explore the results of McScanX a popular synteny and collinearity detection toolkit.

  Language:JavaScript7914

• ProteomicsML/ProteomicsML

  Community-curated tutorials and datasets for ML in proteomics

  Language:Jupyter Notebook427

• lbcb-sci/herro

  HERRO is a highly-accurate, haplotype-aware, deep-learning tool for error correction of Nanopore R10.4.1 or R9.4.1 reads (read length of >= 10 kbps is recommended).

  Language:Rust16910

• ngphubinh/enhancers

  iEnhancer-ECNN: Identifying Enhancers and their Strength using Ensembles of Convolutional Neural Networks

  5

• henryjuho/sal_enhancers

  DFE analysis pipeline from Verta et al. (2021).

  Language:Python22

• tolkit/telomeric-identifier

  Identify and find telomeres, or telomeric repeats in a genome.

  Language:Rust10411

• nclark-lab/RERconverge

  Analysis of convergence between organismal traits and DNA/protein sequences

  Language:HTML4426

• nanoporetech/modkit

  A bioinformatics tool for working with modified bases

  Language:Rust1277

• mrvollger/StainedGlass

  Make colorful identity heatmaps of genomic sequence

  Language:HTML9710

• mrvollger/SafFire

  Language:JavaScript248

• sudmantlab/loco-pipe

  loco-pipe is an automated Snakemake pipeline that streamlines a set of essential population genomic analyses for low-coverage whole genome sequencing (lcWGS) data

  Language:Python92

• KrabbenhoftLab/genome_annotation_pipeline

  Krabbenhoft Lab genome annotation pipeline using BRAKER and GeMoMa

  Language:Shell3

• PeterMulhair/HbxFinder

  Pipeline for homeobox gene identification

  Language:Python71

• hiruna72/squigualiser

  Visualise and analyse nanopore (ONT) raw signals

  Language:Python1072

• al2na/methylKit

  R package for DNA methylation analysis

  Language:R20196

• paoloshasta/shasta

  De novo assembly from Oxford Nanopore reads.

  Language:C++669

• zhangrengang/SubPhaser

  Phase, partition and visualize subgenomes of a neoallopolyploid or hybrid based on the subgenome-specific repetitive kmers.

  Language:Python5312

• refresh-bio/agc

  Assembled Genomes Compressor

  Language:C++15213

• DessimozLab/matreex

  Language:HTML152

• BGI-Qingdao/TGS-GapCloser

  A gap-closing software tool that uses long reads to enhance genome assembly.

  Language:C++16812

• nanoporetech/duplex-tools

  Splitting of sequence reads by internal adapter sequence search

  Language:Python486

• isaacovercast/easySFS

  Effective selection of population size projection for construction of the site frequency spectrum. Convert VCF to dadi/fastsimcoal style SFS for demographic analysis

  Language:Python12323

• cmdcolin/awesome-genome-visualization

  A list of interesting genome browser or genome-browser-like implementations

  Language:TypeScript811105

• nanoporetech/dorado

  Oxford Nanopore's Basecaller

  Language:C++47459

• epi2me-labs/wf-human-variation

  Language:Nextflow9241

• popgenmethods/LDhelmet

  Software package for estimating fine-scale recombination rate.

  Language:C++121

• jcerca/Papers

  Language:Smarty32

• mahulchak/quickmerge

  A simple and fast metassembler and assembly gap filler designed for long molecule based assemblies.

  Language:C++19831