chem3d

chem3d's Stars

• BVLC/caffe

  Caffe: a fast open framework for deep learning.

  Language:C++34.2k2.1k4.8k18.7k

• galaxyproject/galaxy

  Data intensive science for everyone.

  Language:Python1.4k696.4k1k

• trinityrnaseq/trinityrnaseq

  Trinity RNA-Seq de novo transcriptome assembly

  Language:Perl841571.4k320

• freebayes/freebayes

  Bayesian haplotype-based genetic polymorphism discovery and genotyping.

  Language:C++79646692264

• samtools/bcftools

  This is the official development repository for BCFtools. See installation instructions and other documentation here http://samtools.github.io/bcftools/howtos/install.html

  Language:C687482k240

• lh3/miniasm

  Ultrafast de novo assembly for long noisy reads (though having no consensus step)

  Language:TeX309298670

• ebi-pf-team/interproscan

  Genome-scale protein function classification

  Language:Java3071833168

• philres/ngmlr

  NGMLR is a long-read mapper designed to align PacBio or Oxford Nanopore (standard and ultra-long) to a reference genome with a focus on reads that span structural variations

  Language:C++2942210040

• BioInfoTools/BBMap

  (Not Offical) BBMap short read aligner, and other bioinformatic tools.

  Language:Java2151037111

• TGAC/KAT

  The K-mer Analysis Toolkit (KAT) contains a number of tools that analyse and compare K-mer spectra.

  Language:C++2102516352

• gpertea/gffcompare

  classify, merge, tracking and annotation of GFF files by comparing to a reference annotation GFF

  Language:C++207149532

• mahulchak/quickmerge

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

  Language:C++202127332

• ndierckx/NOVOPlasty

  NOVOPlasty - The organelle assembler and heteroplasmy caller

  Language:Perl1811423371

• Gabaldonlab/redundans

  Redundans is a pipeline that assists an assembly of heterozygous/polymorphic genomes.

  Language:C++134810620

• xiaochuanle/MECAT

  MECAT: an ultra-fast mapping, error correction and de novo assembly tool for single-molecule sequencing reads

  Language:C++108126926

• bcgsc/LINKS

  ⛓ Long Interval Nucleotide K-mer Scaffolder

  Language:Perl73115915

• yechengxi/DBG2OLC

  A genome assembler that reduces the computational time of human genome assembly from 400,000 CPU hours to 2,000 CPU hours, utilizing long erroneous 3GS sequencing reads and short accurate NGS sequencing reads.

  Language:C++6676727

• CGGOxford/BrowseVCF

  BrowseVCF is a web-based application and workflow to quickly prioritise disease-causative variants in VCF files.

  Language:Python431278

• aubombarely/Organelle_PBA

  A software to assemble chloroplast and mitochodrial genomes using PacBio data

  Language:Perl3762315

• chipster/chipster

  Chipster is a user-friendly analysis software for high-throughput data.

  Language:Java3321113

• DovetailGenomics/HiRise_July2015_GR

  test repository

  Language:Python291045

• Generade-nl/TULIP

  TULIP - The Uncorrected Long read Itegration Pipeline

  Language:Perl2713104

• aubombarely/GenoToolBox

  A box of genomics tools

  Language:Perl214020

• ktrappe/daisy

  Horizontal Gene Transfer Detection by Mapping Sequencing Reads

  Language:Python21324

• kuleshov/architect

  Scaffolding genomes using synthetic long read clouds

  Language:Python20531

• mourisl/Rascaf

  Scaffolding with RNA-seq read alignment

  Language:C205236

• yechengxi/SparseAssembler

  A sparse k-mer graph based, memory-efficient genome assembler.

  Language:C++102103

• bioinfomaticsCSU/BOSS

  A new algorithm for scaffolding

  Language:C++9373

• elswob/SCUBAT

  Scaffolding Contigs Using Blat And Transcripts

  Language:Perl8201

• GMOD/GBrowse-Adaptors

  Language:Perl818116