echtvarecht rapid variant annotation and filtering
Stars: ✭ 72 (-2.7%)
Mutual labels: genomics, variant-annotations, variant-analysis
plasmidtronAssembling the cause of phenotypes and genotypes from NGS data
Stars: ✭ 27 (-63.51%)
Mutual labels: genomics, bioinformatics-pipeline
bystroBystro genetic analysis (annotation, filtering, statistics)
Stars: ✭ 31 (-58.11%)
Mutual labels: genomics, bioinformatics-pipeline
simuGsimuG: a general-purpose genome simulator
Stars: ✭ 68 (-8.11%)
Mutual labels: genomics, variant-analysis
tiptoftPredict plasmids from uncorrected long read data
Stars: ✭ 27 (-63.51%)
Mutual labels: genomics, bioinformatics-pipeline
saffrontreeSaffronTree: Reference free rapid phylogenetic tree construction from raw read data
Stars: ✭ 17 (-77.03%)
Mutual labels: genomics, bioinformatics-pipeline
gff3toemblConverts Prokka GFF3 files to EMBL files for uploading annotated assemblies to EBI
Stars: ✭ 27 (-63.51%)
Mutual labels: genomics, bioinformatics-pipeline
phenomenet-vpA phenotype-based tool for variant prioritization in WES and WGS data
Stars: ✭ 31 (-58.11%)
Mutual labels: variant-annotations, variant-analysis
assembly improvementImprove the quality of a denovo assembly by scaffolding and gap filling
Stars: ✭ 46 (-37.84%)
Mutual labels: genomics, bioinformatics-pipeline
gubbinsRapid phylogenetic analysis of large samples of recombinant bacterial whole genome sequences using Gubbins
Stars: ✭ 103 (+39.19%)
Mutual labels: genomics, bioinformatics-pipeline
snp-sitesFinds SNP sites from a multi-FASTA alignment file
Stars: ✭ 182 (+145.95%)
Mutual labels: genomics, bioinformatics-pipeline
graphsimR package: Simulate Expression data from igraph network using mvtnorm (CRAN; JOSS)
Stars: ✭ 16 (-78.38%)
Mutual labels: genomics, genomic-data-analysis
mlst checkMultilocus sequence typing by blast using the schemes from PubMLST
Stars: ✭ 22 (-70.27%)
Mutual labels: genomics, bioinformatics-pipeline
TOGATOGA (Tool to infer Orthologs from Genome Alignments): implements a novel paradigm to infer orthologous genes. TOGA integrates gene annotation, inferring orthologs and classifying genes as intact or lost.
Stars: ✭ 35 (-52.7%)
Mutual labels: genomics, bioinformatics-pipeline
mgatkmgatk: mitochondrial genome analysis toolkit
Stars: ✭ 65 (-12.16%)
Mutual labels: genomics
classifai🔥 One of the most comprehensive open-source data annotation platform.
Stars: ✭ 99 (+33.78%)
Mutual labels: annotation-tool
AssemblyticsAssemblytics is a bioinformatics tool to detect and analyze structural variants from a genome assembly by comparing it to a reference genome.
Stars: ✭ 105 (+41.89%)
Mutual labels: genomics
simple NERsimple rule based named entity recognition
Stars: ✭ 29 (-60.81%)
Mutual labels: annotation-tool
jannovarAnnotation of VCF variants with functional impact and from databases (executable+library)
Stars: ✭ 42 (-43.24%)
Mutual labels: variant-annotation
jbrowse-componentsMonorepo with JBrowse 2 web, JBrowse 2 desktop, the JB core package, and core plugins. To customize behaviors, write an in-house plugin.
Stars: ✭ 89 (+20.27%)
Mutual labels: genomics
