gene-annotation

There are 1 repository under gene-annotation topic.

dzhang32 / ggtranscript
Visualizing transcript structure and annotation using ggplot2
gene-annotation visualization transcripts ggplot-extension
Language:R 118
j-andrews7 / Genotify
A minimal desktop app for easy and convenient gene annotation and lookup.
bioinformatics genetics gene-annotation desktop-application gene lookup protein-function
Language:JavaScript 54
sestaton / HMMER2GO
Annotate DNA sequences for Gene Ontology terms
hmmer gene orfs gene-annotation
Language:Perl 40
arendsee / phylostratr
An R framework for phylostratigraphy
bioinformatics gene-annotation genomics phylostratigraphy
Language:R 33
tlatkowski / deep-learning-gene-expression
Deep learning methods for feature selection in gene expression autism data.
gene-expression autism neural-network deep-learning feature-selection autism-data gene-expression-profiles gene-annotation feature-extraction feature-detection features-extraction ttest microarray-data ncbi-database annotated-genes fisher-score python3 numpy data-mining google-colab
Language:Jupyter Notebook 32
decodebiology / geneSCF_inactive
GeneSCF moved to a dedicated GitHub page, https://github.com/genescf/GeneSCF
gene-set-clustering enrichment-analysis gene-annotation gene-ontology kegg kegg-pathway kegg-gene pathways pathway-analysis reactome functional-analysis real-time-processing real-time-analytics
Language:Perl 20
dellytools / sansa
Structural variant VCF annotation, duplicate removal and comparison
structural-variation sv-annotation gene-annotation delly sv-merging vcf-annotation vcf-comparison vcf-filtering
Language:C++ 20
nf-core / genomeannotator
Pipeline for the identification of (coding) gene structures in draft genomes.
nf-core nextflow workflow pipeline genome-annotation gene-annotation annotation draft-genome assembly genome-assembly
Language:Nextflow 16
alejandrogzi / gxf2bed
Fastest GTF/GFF-to-BED converter chilling around
bed converter gene-annotation gff gtf high-performance
Language:Rust 14
alejandrogzi / bed2gtf
A high-performance BED-to-GTF converter written in Rust
bed gene-annotation genes gtf bioinformatics genome-annotation
Language:Rust 11
bpucker / yam
scripts associated with yam genome assembly
ngs ngs-pipeline dna assembly genome-assembly coverage phasing gene-prediction gene-annotation busco
Language:Python 7
mtisza1 / DNA_methylase_finder
Find Prokaryotic DNA methylase genes in proteins, contigs, or genomes
epigenome gene-annotation methylation dna-methlyase dna-methyltransferase methylases methyltransferases
Language:Shell 7
alejandrogzi / bed2gff
BED-to-GFF3 converter that runs in parallel
bed bioinformatics gene-annotation genome-annotation gff3
Language:Rust 6
cmbi / metadome
MetaDome is aimed at professionals in the (bio-)medical field of human genetics who wish to visualize the position of their mutation of interest in the context of general population-based genetic variation and provide detailed information of pathogenic variants found across homologous domain positions.
genes genetics proteins protein-domains genetic-tolerance domain-homology pathogenicity pathogenic-variants variant-annotations variant-interpretation gene-annotation protein-annotation
Language:Python 6
lihaone / GeneBridge
Integrative systems analysis identifying the associations between genes and biological process or modules.
gene association-determination gene-annotation
Language:R 6
sagnikbanerjee15 / fungal_genome_assemblies_and_annotation
Analysis workflow to generate fungal assemblies, generate gene structural and functional annotations
functional-annotation gene-annotation genome-assembly
Language:Shell 5
tderond / CO-ED
Co-occurrence of enzyme domains
bioinformatics enzyme gene-annotation uniprot domains pfam pfam-annotation
Language:Jupyter Notebook 5
alejandrogzi / noel
GTF/GFF per gene non-overlapping exon length calculator
exon gene-annotation gff gtf length non-overlapping
Language:Rust 3
alejandrogzi / postoga
The post-TOGA processing pipeline
bioinformatics gene-annotation pipeline post-processing
Language:Python 3
dzhang32 / ER_paper_2020_supp_code
Supplementary code for the paper: Incomplete annotation has a disproportionate impact on our understanding of Mendelian and complex neurogenetic disorders
rna-seq gene-annotation derfinder brain-disorders
Language:R 3
grassking100 / deep_gene_annotator
The related code of the master thesis, "Using deep learning to predict gene structures of the coding genes in DNA sequences of Arabidopsis thaliana"
gene-annotation deep-learning pytorch rnn arabidopsis-thaliana
Language:Python 3
KatrionaGoldmann / omicAnnotations
Package to gather gene information, annotations, and functions
gene-annotation gene-function gene-set-enrichment snp-associations snp-annotation
Language:R 2
GBSON
lehwark / GBSON
A new annotation file format based on JSON, containing all information stored in the GenBank format but with advantageoius parsing and information structure properties.
json genbank bioinformatics gene-annotation
Language:TypeScript 2
pentalpha / rna_gatherer
ncRNA identification, annotation and functional prediction
bioinformatics bioinfo ncrna functional-prediction gene-function functional-annotation gene-prediction ncrna-protein-interactions lncrna lncrna-pipeline gene-annotation pipeline
Language:Python 2
dzhang32 / ODER
Optimising the Definitions of Expressed Regions
derfinder gene-annotation rna-seq
Language:R 1
joonan-lab / gene-mat-recipe
This is a recipe to make my gene matrix
gene-annotation
Language:Jupyter Notebook 1
MoseleyBioinformaticsLab / categoryCompare2
Enables Gene Ontology (and other feature annotation) enrichment calculations and comparisons between feature sets.
bioconductor bioinformatics r gene-expression gene-sets gene-annotation rstats
Language:R 1
sanger-tol / ensemblgenedownload
Nextflow pipeline to download gene annotations from Ensembl onto the Tree of Life directory structure
download gene-annotation genomics indexing nextflow pipeline
Language:Groovy 1
ahabegger / Gene-Annotation-Comparison
A bioinformatics software system designed for comparing gene annotations between different releases for a selected species. It includes Python classes for data processing, information extraction, a MySQL relational database, and web-based interfaces for dynamic data querying.
bioinformatics gene-annotation genomics mysql web-interface
Language:HTML 0
AxelGiottonini / EMBLish
EMBLish aims to provide a tool for converting gene prediction files such as Maker output file and gene annotation files such as Pannzer2 output file into the EMBL format
embl-entry gff3 gff3-format embl-format bioinformatics gene-prediction gene-annotation gff3-files maker pannzer2
Language:Python 0
kkwock / Stone
Stone Lab @ CSUEB Collaboration Projects focused on Plant Bioinformatics
gene-annotation rna-seq
Language:HTML 0
Orpowell / SABAT
A toolkit for identifying gene homologs in closely related species.
bioinformatics gene-annotation gene-prediction
Language:Python 0
Orpowell / SABAT_NF
A NextFlow pipeline for the annotation of gene homologs using SABAT.
bioinformatics bioinformatics-pipeline gene-annotation
Language:Python 0
RawalTeam / MeX-Pipeline
A pipeline for identification and annotation of transposable element (TE) insertions using next generation sequencing (NGS) data.
ngs fastq gene transposable-elements mobile-genetic-elements gene-annotation
Language:Python 0
sadovsd / platypus-genome-annotation-comparison
Analysis of different versions of Platypus Gene Annotations from the Ensembl database. Includes a basic frontend to present data, hosted using a Miami class server. The backend is a database containing gene data that a user can query through the frontend.
full-stack-web-development gene-annotation
Language:Jupyter Notebook 0
robomics / generate_higlass_gene_track
Nextflow workflow to generate gene track files for HiGlass
bioinformatics higlass bioinformatics-pipeline gene-annotation nextflow
Language:Nextflow

gene-annotation

dzhang32 / ggtranscript

j-andrews7 / Genotify

sestaton / HMMER2GO

arendsee / phylostratr

tlatkowski / deep-learning-gene-expression

decodebiology / geneSCF_inactive

dellytools / sansa

nf-core / genomeannotator

alejandrogzi / gxf2bed

alejandrogzi / bed2gtf

bpucker / yam

mtisza1 / DNA_methylase_finder

alejandrogzi / bed2gff

cmbi / metadome

lihaone / GeneBridge

sagnikbanerjee15 / fungal_genome_assemblies_and_annotation

tderond / CO-ED

alejandrogzi / noel

alejandrogzi / postoga

dzhang32 / ER_paper_2020_supp_code

grassking100 / deep_gene_annotator

KatrionaGoldmann / omicAnnotations

lehwark / GBSON

pentalpha / rna_gatherer

dzhang32 / ODER

joonan-lab / gene-mat-recipe

MoseleyBioinformaticsLab / categoryCompare2

sanger-tol / ensemblgenedownload

ahabegger / Gene-Annotation-Comparison

AxelGiottonini / EMBLish

kkwock / Stone

Orpowell / SABAT

Orpowell / SABAT_NF

RawalTeam / MeX-Pipeline

sadovsd / platypus-genome-annotation-comparison

robomics / generate_higlass_gene_track