Data Integrator
Tool documentation
The following tools have been implemented:
Perl tools
gcoords2cons - Variation consequences
gcoords2genes - Genes in the vicinity of a genomic coordinate
gcoords2snp - Conversion of genomic coordinates to dbSNP IDs
gcoords2ld - Linkage disequilibrium for genomic coordinate/gene pairs
gcoords2reg - Retrieval of Ensembl regulatory information
gene2canonexons - Extract exon coordinates of a Gene
gcoordsconservation - Sequence conservation status/GERP scores retriever
liftgcoords - Uplift genomic coordinates from past builds to current build
snp2gcoords - Conversion of dbSNP IDs to genomic coordinates
tbl2tbl - Text file to table converter.
tblsubmerge - Merge previously split cells
tblsubsplit - Split cells by a non-column separator character
Python tools
ClinVarAnnotator - Retrieve information from ClinVar (NCBI)
DMGeneIdConverter - Drosophila melanogaster gene ID converter
DrugBankAnnotator - Furnish proteins with associated drugs
GalaxyInstall - DIntegrator tools installation on Galaxy server
GOAnnotator - Access Gene Onotology Annotation
Gcoords2gcoords - Generation and split of genomic coordinates
GOEnricher - Perform gene set enrichment analysis on sets of proteins.
GOFunSim - Computes similarity between pairs of proteins.
GOGraphBuilder - Generation of graphs furnished with annotation data
HGMDAnnotator - Retrieve information from HGMD (Human Gene Mutation Database)
HSEnsg2gcoords - Retrieve genomic coordinates for genes
HSEnsgProteinMapper - Ensembl gene ID to protein ID mapping
HSGeneAtlas - GNF Gene Atlas based gene expression assignment.
HSGeneIdConverter - Homo sapiens gene ID converter
HSGeneOrthologyMapper - Orthology mapping between human and a model organism
InteractionAnnotator - Retrieve protein-protein interactions and co-complex data
Interval2Genes - Finding genes in an interval
MetaRanker - Combining multiple score columns into a single score
MendelianFilter - VCF based filter for removing variants that do not comply with Mendelian inheritence.
PharmaADMEntor - Flag variants reliably associated with drug metabolism
Pos2LDBlock - Assignment of closest LD block for a location.
Prioritizer - Utilizing Dintor modules for disease gene prioritization
ReactomeAnnotator - Retrieve curated Reactome data
SNPGeneGlobalLDChecker - Linkage disequilibrium block membership for genomic coordinates
TableJoiner - Join two unsorted tables based on a common column
VCF2Dint - Conversion from VCF to Dintor input format.
Generated by
1.9.1