Index

_

__init__() (acidgenomes.EnsemblExons method) (acidgenomes.EnsemblGenes method) (acidgenomes.EnsemblToNcbi method) (acidgenomes.EnsemblTranscripts method) (acidgenomes.FlybaseExons method) (acidgenomes.FlybaseGenes method) (acidgenomes.FlybaseTranscripts method) (acidgenomes.GencodeExons method) (acidgenomes.GencodeGenes method) (acidgenomes.GencodeTranscripts method) (acidgenomes.GeneToSymbol method) (acidgenomes.Hgnc method) (acidgenomes.JaxHumanToMouse method) (acidgenomes.Mgi method) (acidgenomes.NcbiGeneHistory method) (acidgenomes.NcbiGeneInfo method) (acidgenomes.NcbiToEnsembl method) (acidgenomes.ProteinToGene method) (acidgenomes.RefseqExons method) (acidgenomes.RefseqGenes method) (acidgenomes.RefseqTranscripts method) (acidgenomes.TxToGene method) (acidgenomes.UcscExons method) (acidgenomes.UcscGenes method) (acidgenomes.UcscTranscripts method) (acidgenomes.WormbaseExons method) (acidgenomes.WormbaseGenes method) (acidgenomes.WormbaseTranscripts method)

C

current_ensembl_genome_build() (in module acidgenomes) current_ensembl_version() (in module acidgenomes) current_flybase_version() (in module acidgenomes) current_gencode_genome_build() (in module acidgenomes)

current_gencode_version() (in module acidgenomes) current_refseq_genome_build() (in module acidgenomes) current_refseq_version() (in module acidgenomes) current_ucsc_genome_build() (in module acidgenomes) current_wormbase_version() (in module acidgenomes)

D

detect_organism() (in module acidgenomes) download_ensembl_genome() (in module acidgenomes)

download_gencode_genome() (in module acidgenomes) download_refseq_genome() (in module acidgenomes) download_ucsc_genome() (in module acidgenomes)

E

EnsemblExons (class in acidgenomes) EnsemblGenes (class in acidgenomes)

EnsemblToNcbi (class in acidgenomes) EnsemblTranscripts (class in acidgenomes)

F

FlybaseExons (class in acidgenomes)

FlybaseGenes (class in acidgenomes) FlybaseTranscripts (class in acidgenomes)

G

gencode_release_history() (in module acidgenomes) GencodeExons (class in acidgenomes) GencodeGenes (class in acidgenomes)

GencodeTranscripts (class in acidgenomes) GeneToSymbol (class in acidgenomes) go_terms_per_gene_name() (in module acidgenomes)

H

Hgnc (class in acidgenomes)

I

import_tx_to_gene() (in module acidgenomes)

J

JaxHumanToMouse (class in acidgenomes)

M

make_ensembl_genes() (in module acidgenomes) make_ensembl_genes_from_gtf() (in module acidgenomes) make_ensembl_to_ncbi() (in module acidgenomes) make_gene_to_symbol() (in module acidgenomes) make_granges_from_ensembl() (in module acidgenomes) make_granges_from_gff() (in module acidgenomes) make_hgnc() (in module acidgenomes) make_jax_human_to_mouse() (in module acidgenomes) make_mgi() (in module acidgenomes) make_ncbi_gene_history() (in module acidgenomes) make_ncbi_gene_info() (in module acidgenomes) make_ncbi_to_ensembl() (in module acidgenomes)

make_protein_to_gene_from_ensembl() (in module acidgenomes) make_tx_to_gene() (in module acidgenomes) make_tx_to_gene_from_fasta() (in module acidgenomes) map_ensembl_release_to_url() (in module acidgenomes) map_ensembl_to_gencode() (in module acidgenomes) map_gencode_to_ensembl() (in module acidgenomes) map_gene_names_to_ensembl() (in module acidgenomes) map_gene_names_to_hgnc() (in module acidgenomes) map_gene_names_to_ncbi() (in module acidgenomes) map_go_terms() (in module acidgenomes) map_human_orthologs() (in module acidgenomes) Mgi (class in acidgenomes)

N

NcbiGeneHistory (class in acidgenomes)

NcbiGeneInfo (class in acidgenomes) NcbiToEnsembl (class in acidgenomes)

P

ProteinToGene (class in acidgenomes)

R

RefseqExons (class in acidgenomes)

RefseqGenes (class in acidgenomes) RefseqTranscripts (class in acidgenomes)

S

strip_exon_versions() (in module acidgenomes)

strip_gene_versions() (in module acidgenomes) strip_transcript_versions() (in module acidgenomes)

T

TxToGene (class in acidgenomes)

U

UcscExons (class in acidgenomes) UcscGenes (class in acidgenomes)

UcscTranscripts (class in acidgenomes) update_gene_symbols() (in module acidgenomes)

W

WormbaseExons (class in acidgenomes)

WormbaseGenes (class in acidgenomes) WormbaseTranscripts (class in acidgenomes)