GitHub topics: ncbi-database
IlyinVyacheslav/BioInformatics
Gene download from NCBI database, sequence alignment and clusterization, realization of different bioinformatics algorithms within ITMO 4 sem course
Language: Jupyter Notebook - Size: 14.5 MB - Last synced at: 3 days ago - Pushed at: 3 days ago - Stars: 0 - Forks: 0
madsondeluna/api_request_NCBI
This repository contains a Python script that queries NCBI to retrieve detailed information about SNPs (Single Nucleotide Polymorphisms) and parses the returned data. The script makes a request to the NCBI API, parses the XML data, and organizes the information into tables using pandas.
Language: Python - Size: 287 KB - Last synced at: 9 days ago - Pushed at: 9 days ago - Stars: 0 - Forks: 0
Joseph7e/Assign-Taxonomy-with-BLAST
Assign taxonomy with blast, can be used for qiime
Language: Python - Size: 63.5 KB - Last synced at: 28 days ago - Pushed at: 28 days ago - Stars: 22 - Forks: 7
banhbio/Taxonomy.jl
Julia package to handle the NCBI Taxonomy database.
Language: Julia - Size: 545 KB - Last synced at: 11 days ago - Pushed at: about 1 month ago - Stars: 12 - Forks: 1
tracywong117/NCBI-get-all-children-organism-under-ancestor
This Python script retrieve all children organism under an ancestor in NCBI taxonomy.
Language: Python - Size: 10.7 KB - Last synced at: about 1 month ago - Pushed at: 2 months ago - Stars: 1 - Forks: 0
tlatkowski/deep-learning-gene-expression
Deep learning methods for feature selection in gene expression autism data.
Language: Jupyter Notebook - Size: 42.4 MB - Last synced at: 23 days ago - Pushed at: almost 3 years ago - Stars: 36 - Forks: 17
FOI-Bioinformatics/flextaxd
FlexTaxD (Flexible Taxonomy Databases) - Create, add, merge different taxonomy sources (QIIME, GTDB, NCBI and more) and create metagenomic databases (kraken2, ganon and more )
Language: Python - Size: 1.06 MB - Last synced at: 8 days ago - Pushed at: about 1 month ago - Stars: 65 - Forks: 8
fhdsl/AnVIL_SRA_Data
Pull Sequence Read Archive (SRA) data into AnVIL
Language: CSS - Size: 16.1 MB - Last synced at: about 2 months ago - Pushed at: about 2 months ago - Stars: 0 - Forks: 0
PoorRican/ncbi-rs
Find and retrieve biological data and its metadata from NCBI
Language: Rust - Size: 468 KB - Last synced at: about 1 month ago - Pushed at: about 1 month ago - Stars: 2 - Forks: 1
eric9n/ncbi_dl
A command-line tool for downloading and managing NCBI genome data
Language: Rust - Size: 79.1 KB - Last synced at: 7 months ago - Pushed at: 7 months ago - Stars: 0 - Forks: 0
IBCHgenomic/sra-explorer
explore sra databases and sequence retrieval
Language: Shell - Size: 2.93 KB - Last synced at: about 1 month ago - Pushed at: 8 months ago - Stars: 0 - Forks: 0
RamDvlp/Abstract-Generator
LLM model which summarizes academic article into an abstract paragraph
Language: Jupyter Notebook - Size: 694 KB - Last synced at: 8 months ago - Pushed at: 8 months ago - Stars: 0 - Forks: 0
profetia/VirFormer 📦
Identifying viruses as an anomaly
Language: Python - Size: 3.94 MB - Last synced at: 8 months ago - Pushed at: over 2 years ago - Stars: 2 - Forks: 0
AjayD17/NCBI-Website
I developed the "National Centre for Biotechnology Information" project to create a comprehensive and user-friendly platform for accessing and exploring a wealth of biotechnological information. Utilizing HTML, CSS, and Bootstrap, I designed a responsive web application that ensures seamless accessibility across various devices and screen sizes.
Language: HTML - Size: 10.7 KB - Last synced at: 11 months ago - Pushed at: 11 months ago - Stars: 0 - Forks: 0
faryal92/datasets Fork of ncbi/datasets
NCBI Datasets is an experimental resource for finding and building datasets
Size: 83 KB - Last synced at: over 1 year ago - Pushed at: over 4 years ago - Stars: 1 - Forks: 0
vishnunv0911/PrDb
A tool to fetch Protein sequences of different subtypes of Influenza A virus from the NCBI database and create a local database to store the sequences for further library preparation used for Phage-Immunoprecipitation Sequencing.
Language: Python - Size: 10.7 KB - Last synced at: over 1 year ago - Pushed at: over 1 year ago - Stars: 0 - Forks: 0
kalyaniuniversity/mgx-datasets
A list of publicly available Microarray Gene Expression datasets with proper attribution and associated toolkits.
Language: Python - Size: 32 MB - Last synced at: about 1 year ago - Pushed at: over 4 years ago - Stars: 1 - Forks: 2
MountainMan12/SARS-Cov2-phylo
Analysis of the viral genomes of SARS-CoV2 using MAFFT and igtree
Language: Python - Size: 38.1 KB - Last synced at: 5 months ago - Pushed at: over 4 years ago - Stars: 5 - Forks: 3
symgenoevolab/genome_metadata
Genome Metadata Visualizer is a series of scripts written to process and visualise genome metadata after it is pulled from NCBI using the dataset and dataformat command line tools.
Language: HTML - Size: 6.2 MB - Last synced at: about 1 year ago - Pushed at: over 1 year ago - Stars: 1 - Forks: 0
Androidbeingx/OMIC_RESEARCH
Python class project in collab with @heloint and @anivalle. Using Entrez, Seq.io, regex, pandas
Language: Python - Size: 6.93 MB - Last synced at: 14 days ago - Pushed at: about 2 years ago - Stars: 1 - Forks: 0
Sarah-Hesham-2022/BioPython-Getopt-Biological-Command-Line-Interpreter
Bio Python Project using getopt library in python and engaging with the command line prompt.
Language: Python - Size: 1.21 MB - Last synced at: about 2 years ago - Pushed at: about 2 years ago - Stars: 3 - Forks: 0
allielarocco/Microarray-Analysis
Microarray Analysis Pipeline in Python
Language: Jupyter Notebook - Size: 35.5 MB - Last synced at: about 2 years ago - Pushed at: over 5 years ago - Stars: 12 - Forks: 7
guyleonard/taxdump_edit
:seedling: :arrow_right: :deciduous_tree: Add new taxa or taxonomic groups to the NCBI Taxdump files
Language: Perl - Size: 23.4 KB - Last synced at: about 2 years ago - Pushed at: about 5 years ago - Stars: 12 - Forks: 2
CNuge/go-fasta
A tool for manipulating fasta files and obtaining new sequence data from NCBI in fasta format
Language: Go - Size: 4.38 MB - Last synced at: 10 months ago - Pushed at: over 6 years ago - Stars: 3 - Forks: 1
jranaraki/NCBIdataPrep
An R code to convert NCBI data files into CSV
Language: R - Size: 25.4 KB - Last synced at: almost 2 years ago - Pushed at: over 5 years ago - Stars: 3 - Forks: 1
b4zinga/fluPlatform
Reconfigurable Platform of Spreading Process of Global Influenza.
Language: Python - Size: 1.77 MB - Last synced at: almost 2 years ago - Pushed at: over 6 years ago - Stars: 0 - Forks: 1
shriharipathak/ncbi
Crawling NCBI Pubmed Data using HTML and jQuery
Language: HTML - Size: 77.1 KB - Last synced at: about 2 years ago - Pushed at: about 8 years ago - Stars: 1 - Forks: 0
