reference-genome

There are 1 repository under reference-genome topic.

• Hoohm / dropSeqPipe

  A SingleCell RNASeq pre-processing snakemake workflow

  drop-seqsnakemakepipelinedropseqyamlstarpicardreference-genomeumiscrbseqscrb-seqmultiqccondaplotdropseqtools
  Language:Python 146

• refgenie / refgenie

  Reference genome resource manager

  reference-genomeapi-client
  Language:Python 69

• Genomicsplc / variantkey

  Numerical Encoding for Human Genetic Variants

  variantshuman-genetic-variantschromosomereference-genomenucleotidespositionreference-allelealternate-allelevariant-normalizationreference-positionvariantkeyrsidgenomicsgeneticdnabase
  Language:C 36

• refgenie / refgenieserver

  Serves a web interface and RESTful API for reference genome assets.

  genome-assemblyreference-genomeapi-serverdocker-container
  Language:Python 12

• grev-uv / hpg-methyl

  An ultrafast and highly sensitive Next-Generation Sequencing (NGS) read mapper and methylation extractor.

  fastq-analysismethylation-extractorreference-genome
  Language:C 8

• standage / genhub

  Explore eukaryotic genome composition and organization with iLoci

  annotationgenomeilocireference-genome
  Language:Python 6

• tseemann / polyfix

  🔪⛓️ Repair nanopore assemblies using related genome(s)

  genome-assemblycorrectionnanopore-sequencingreference-genomeindel-finder
  Language:Perl 5

• EmilieT / mutcraft

  R tools to mine & craft somatic mutations from cancer genomes

  reference-genomemutationssomatic-variantssignaturewhole-genome-sequencing
  Language:R 3

• refgenie / refgenconf

  A Python object for standardized reference genome assets.

  pythonapireference-genomerefgenie
  Language:Python 3

• visheshsinha / DNA-Sequencing

  Get Started with DNA Sequencing working with .FastQ and .FastA file formats and performing Pattern Matching Algorithms (Exact & Approximate).

  dnasequencingexact-matcchingpattern-matchingz-algorithmk-mer-countingk-merspigeonholedna-sequencingreference-genome
  Language:Jupyter Notebook 2

• shumengjun / TASSEL_GBS_V2

  Calling SNPs using TASSEL GBS V2 pipeline for ponderosa pine using the reference genome of loblolly pine

  snppipelinevcfpinereference-genome
  Language:Shell 1

• AnimalGenomicsETH / Reference_assembly_choice

  Repository including scripts and workflows for "Investigating the impact of reference assembly choice on genomic analyses in a cattle breed"

  bioinformaticsgenomicsreference-genome
  Language:Jupyter Notebook 0

• kerrimalone / M.bovis-AF2122-genome-update

  Updated Reference Genome Sequence and Annotation of Mycobacterium bovis AF2122/97

  mycobacterium-bovisreference-genomegenome-assemblypacbioillumina-sequencingde-novo-assemblygenome-updatemycobacterium-tuberculosis-complexmycobacterium-bovis-af2122
  Language:Shell 0

• leahkemp / guinea_pore_c

  Analysis documentation for part of the reference genome assembly of the humble guinea pig. Oxford Nanopore Technologies (ONT) pore-c data.

  guinea-pignanoporepore-creference-genome
  Language:HTML 0

• Nazeeefa / bioinfo_nf

  bioinformaticsgenomicsreference-genomepythonrstudiorstats
  Language:Python 0

• superphy / prairiedog_go

  probability emitting pangenome graphs

  pan-genomereference-genomevariantsgraph
  Language:Go 0

• Sydney-Informatics-Hub / IndexReferenceFasta-nf

  Create required reference genome index files for WGS data analysis

  bioinformaticsbwadockerfastagatk4genomegenomicsindexnextflowpipelinereference-genomesamtoolssingularityworkflow
  Language:Nextflow