MonsterLaplace

MonsterLaplace's Stars

• schneebergerlab/plotsr

  Tool to plot synteny and structural rearrangements between genomes

  Language:Python27628

• schneebergerlab/syri

  Synteny and Rearrangement Identifier

  Language:Cython32235

• hardingnj/xpclr

  Code to compute the XP-CLR statistic to infer natural selection

  Language:Python8627

• GregoryFaust/samblaster

  samblaster: a tool to mark duplicates and extract discordant and split reads from sam files.

  Language:C++22130

• dportik/dadi_pipeline

  An accessible and flexible tool for fitting demographic models with dadi using custom or published models (available here), conducting goodness of fit tests, and plotting.

  Language:Python6330

• rapidspeciation/biodiversity_genomics_course

  biodiversity genomics course by Nicol Rueda, Karin Näsvall and Joana Meier from the Wellcome Sanger Institute

  Language:R401

• xuzhougeng/wgap

  Whole Genome Annotation Pipeline

  Language:Python153

• weberlab-hhu/Helixer

  Using Deep Learning to predict gene annotations

  Language:Python16227

• Gaius-Augustus/GALBA

  GALBA is a pipeline for fully automated prediction of protein coding gene structures with AUGUSTUS in novel eukaryotic genomes for the scenario where high quality proteins from one or several closely related species are available.

  Language:Perl1234

• RemiAllio/MitoFinder

  MitoFinder: efficient automated large-scale extraction of mitogenomic data from high throughput sequencing data

  Language:Python8815

• PASApipeline/PASApipeline

  PASA software

  Language:Perl17258

• EVidenceModeler/EVidenceModeler

  source code for EVM

  Language:Perl10120

• millanek/Dsuite

  Fast calculation of Patterson's D (ABBA-BABA) and the f4-ratio statistics across many populations/species

  Language:C++16026

• ydLiu-HIT/deSALT

  deSALT - De Bruijn graph-based Spliced Aligner for Long Transcriptome reads

  Language:C437

• edgardomortiz/vcf2phylip

  Convert SNPs in VCF format to PHYLIP, NEXUS, binary NEXUS, or FASTA alignments for phylogenetic analysis

  Language:Python28685

• nservant/HiC-Pro

  HiC-Pro: An optimized and flexible pipeline for Hi-C data processing

  Language:Python383183

• deeptools/HiCExplorer

  HiCExplorer is a powerful and easy to use set of tools to process, normalize and visualize Hi-C data.

  Language:Python23170

• dekkerlab/cworld-dekker

  perl cworld module and collection of utility/analysis scripts for C data (3C, 4C, 5C, Hi-C)

  Language:Perl6320

• starskyzheng/panpop

  Application of pan-genome for population

  Language:Perl888

• simonhmartin/genomics_general

  General tools for genomic analyses.

  Language:Python33092

• lastz/lastz

  Program for aligning DNA sequences, a pairwise aligner.

  Language:C19535

• moshi4/CafePlotter

  A tool for plotting CAFE5 gene family expansion/contraction result

  Language:Python242

• zengxiaofei/HapHiC

  HapHiC: a fast, reference-independent, allele-aware scaffolding tool based on Hi-C data

  Language:Python1278

• mahulchak/quickmerge

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

  Language:C++19831

• marbl/Winnowmap

  Long read / genome alignment software

  Language:C24522

• marbl/verkko

  Telomere-to-telomere assembly of accurate long reads (PacBio HiFi, Oxford Nanopore Duplex, HERRO corrected Oxford Nanopore Simplex) and Oxford Nanopore ultra-long reads.

  Language:Python28327

• raeslab/omixer-rpm

  A Reference Pathways Mapper for turning metagenomic functional profiles into pathway/module profiles.

  Language:Java258

• franciscozorrilla/metaGEM

  :gem: An easy-to-use workflow for generating context specific genome-scale metabolic models and predicting metabolic interactions within microbial communities directly from metagenomic data

  Language:Python18840

• mariemorel/condor

  ConDor: a workflow to detect convergent evolution in large protein alignments

  Language:Python73

• samtools/samtools

  Tools (written in C using htslib) for manipulating next-generation sequencing data

  Language:C1.6k576