malonge

malonge's Stars

• davidemms/OrthoFinder

  Phylogenetic orthology inference for comparative genomics

  Language:Python72827923189

• suchow/Dissertate

  Beautiful LaTeX dissertation templates.

  Language:TeX7223064164

• gamcil/clinker

  Gene cluster comparison figure generator

  Language:Python545159271

• NBISweden/AGAT

  Another Gtf/Gff Analysis Toolkit https://nbisweden.github.io/AGAT/

  Language:Perl4744533957

• nanoporetech/bonito

  A PyTorch Basecaller for Oxford Nanopore Reads

  Language:Python40234342122

• brentp/cyvcf2

  cython + htslib == fast VCF and BCF processing

  Language:Cython383721672

• schneebergerlab/syri

  Synteny and Rearrangement Identifier

  Language:Cython350626238

• 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:Python3131829030

• schneebergerlab/plotsr

  Tool to plot synteny and structural rearrangements between genomes

  Language:Python29158628

• amplab/snap

  Scalable Nucleotide Alignment Program -- a fast and accurate read aligner for high-throughput sequencing data

  Language:C++2884613466

• tjiangHIT/cuteSV

  Long read based human genomic structural variation detection with cuteSV

  Language:Python253612936

• lbcb-sci/raven

  De novo genome assembler for long uncorrected reads

  Language:C++212106621

• haowenz/chromap

  Fast alignment and preprocessing of chromatin profiles

  Language:C++194711021

• shenwei356/kmcp

  Accurate metagenomic profiling && Fast large-scale sequence/genome searching

  Language:Go18264813

• baoxingsong/AnchorWave

  Sensitive alignment of genomes with high sequence diversity, extensive structural polymorphism and whole-genome duplication variation

  Language:C++15686119

• eldariont/svim

  Structural Variant Identification Method using Long Reads

  Language:Python15567119

• cpockrandt/genmap

  GenMap - Fast and Exact Computation of Genome Mappability

  Language:C++10432918

• bihealth/vcfpy

  Python 3 library with good support for both reading and writing VCF

  Language:Python9965521

• lh3/unimap

  A EXPERIMENTAL fork of minimap2 optimized for assembly-to-reference alignment

  Language:C89474

• LiLabAtVT/DeepTE

  Neural network classification of TE

  Language:Python877357

• arq5x/grabix

  a wee tool for random access into BGZF files.

  Language:C8452412

• harta55/EnTAP

  EnTAP is moving to GitLab for future changes https://gitlab.com/PlantGenomicsLab/EnTAP

  Language:C387539

• dfguan/pin_hic

  A Hi-C scaffolding method

  Language:C223143

• huangnengCSU/BlockPolish

  BlockPolish: accurate polishing of long-read assembly via block divide-and-conquer

  Language:Python18130

• marbl/CHM13-issues

  CHM13 human reference genome issue tracking

  Language:HTML18963

• idanefroni/Conservatory

  Identification of conserved non-coding sequences in plants

  Language:Perl13383

• ydLiu-HIT/SKSV

  ultrafast structural variation detection from circular consensus sequencing reads

  Language:Python13311

• hdashnow/TandemRepeatFinder_scripts

  Language:Python7412

• kjenike/HetTrek

  Language:C++3200

• kullrich/dagchainer

  Fork of the DAGchainer project https://sourceforge.net/projects/dagchainer

  Language:Roff1200