entrez

There are 23 repositories under entrez topic.

  • tidybulk

    stemangiola/tidybulk

    Brings bulk and pseudobulk transcriptomics to the tidyverse

    Language:R16468325

  • krassowski/easy-entrez

    Retrieve PubMed articles, text-mining annotations, or molecular data from >35 Entrez databases via easy to use Python package - built on top of Entrez E-utilities API.

    Language:Python664147

  • ropensci/restez

    :sleeping: :open_file_folder: Create and Query a Local Copy of GenBank in R

    Language:R258435

  • Zenleaf/entrez-rs

    A Rust wrapper around the Entrez API. Helps you access the Entrez API using idiomatic Rust. It also provides tools to parse the XML results from Entrez.

    Language:Rust17423

  • bcbi/julia_tutorials

    Materials used for introductory classes using Julia for statistics, biomedical queries and plotting

    Language:Jupyter Notebook4904

  • cornish/pubmed-eponyms

    Python scripts for searching Pubmed using Biopython and working with eponymous terms

    Language:Python4200

  • etowahadams/PMC-figure-downloader

    Extract figures and figure captions from PMC open access papers

    Language:Jupyter Notebook4100

  • UniBioDicts/vsm-dictionary-pubmed

    A VSM-dictionary that uses NCBI's E-utilities API to connect with the PubMed database

    Language:JavaScript2210

  • Androidbeingx/OMIC_RESEARCH

    Python class project in collab with @heloint and @anivalle. Using Entrez, Seq.io, regex, pandas

    Language:Python1000

  • cognoma/genes

    Genes for Project Cognoma

    Language:Python1415

  • myrtje51/bi0inf0rmatics

    Language:Jupyter Notebook1200

  • bkapsalis/Kaggle_Competition_Classify_Gene_Mutations_Effect_on_Protein_Function

    This is a Kaggle competition sponsored by Memorial Sloan Kettering Cancer Center. This competition is the first step in personalized medicine to determine oncogenicity of a tumor. Algorithm using sparse words to predict gene mutations effect on protein function.

    Language:Jupyter Notebook0200

  • chadr1989/fasta_files_from_accession_codes

    This script iterates over an excel file with Genbank accession numbers. It creates individual fasta files with customized deflines for every valid accession number. It also creates a combined fasta file and .txt file with every valid accession number.

    Language:Jupyter Notebook0100

  • cparmet/Entrez-AWS

    Modification of the Biopython Entrez module to be compatible with AWS Lambda.

    Language:Python0100

  • elrf3lipes/ramon-s_portfolio

    I'm passionate about Cloud and DevOps, and for the moment I'm posting some of my work and personal projects here to showcase that. If its useful for you, feel free to integrate or contribute!

    00

  • justin-tpb/TaxIDs-to-SankeyMATIC

    Fetch taxonomic information from Entrez using a list of TaxIDs and visualize user-selected taxonomic ranks with SankeyMATIC.

    Language:Python0100

  • PopovIILab/PhoBl

    🦇🦠🌳Supplementary materials for study on detection of Brno loanvirus in Southern Russia

    Language:Jupyter Notebook0000

  • RafaelQSantos-RQS/active-pipeline-arbovirus

    Este é um repositório de um pipeline de dados, uma ferramenta automatizada e robusta projetada para efetuar a estração de sequências genéticas utilizando a API Entrez do GenBank. Este pipeline é o resultado de um esforço contínuo para facilitar o acesso e a manipulação de dados genéticos de importância global, com foco atual no vírus Chikungunya.

    Language:Python0100

  • Rendrick27/NCBI-Sequence-Fetcher

    fetche sequences in ncbi

    Language:Python00

  • gabrielramirezv/BioPython

    Repository for BioPython class, belonging to the Undergraduate Program in Genomic Sciences, UNAM.

    Language:Python

  • metamaden/seq_answers

    Sequencing data preprocessing

    Language:R20

  • smeichle/scrape

    Web scraping with Python

    20

  • tpall/entrezquery

    Query entrez databases using R, returns document summaries as data frame. Wrapper function around esearch and esummary etools.

    Language:R20