Issues

• Cannot pipe id recovery after id linking

  stitam/webseq#110 · Filter by author stitam opened on Nov 21, 2025

• Cannot recover the URL of an article even though it exists

  stitam/webseq#109 · Filter by author stitam opened on Nov 21, 2025

• ncbi_recover_id() should not recover pubmed urls

  stitam/webseq#108 · Filter by author stitam opened on Nov 21, 2025

• Cannot link biosample to sra

  stitam/webseq#107 · Filter by author stitam opened on Nov 21, 2025

• ncbi_get_uid() unexpected behaviour

  stitam/webseq#106 · Filter by author stitam opened on Oct 29, 2025

• Convert IDs that belong to sequencing runs

  stitam/webseq#105 · Filter by author stitam opened on Oct 28, 2025

• Add vignette

  stitam/webseq#104 · Filter by author stitam opened on Oct 24, 2025
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• ncbi_get_uid() fails when I mix up the ID and the database

  stitam/webseq#100 · Filter by author stitam opened on Jul 15, 2025

• Better error messages for ncbi_download_genome()

  stitam/webseq#99 · Filter by author stitam opened on May 9, 2025

• Genomes Online Database (GOLD)

  stitam/webseq#98 · Filter by author stitam opened on Apr 22, 2025

• Implement more pipes with NCBI functions

  stitam/webseq#96 · Filter by author stitam opened on Jan 22, 2025

• Indicate batches in verbose messages

  stitam/webseq#95 · Filter by author stitam opened on Jan 21, 2025

• Allow functions to terminate gracefully

  stitam/webseq#94 · Filter by author stitam opened on Jan 13, 2025

• BacMet

  stitam/webseq#93 · Filter by author stitam opened on Jan 8, 2025

• Metadata parsing fails for some BioSamples

  stitam/webseq#92 · Filter by author stitam opened on Jan 5, 2025

• More informative verbose messages for ncbi_parse()

  stitam/webseq#91 · Filter by author stitam opened on Jan 5, 2025

• BakRep

  stitam/webseq#87 · Filter by author stitam opened on Nov 6, 2024

• Add error handling when ncbi_get_summary() returns NA

  stitam/webseq#85 · Filter by author stitam opened on Jul 29, 2024

• Download assemblies from ENA

  stitam/webseq#83 · Filter by author stitam opened on Jul 24, 2024

• Retrieve protein sequences from UniProt

  stitam/webseq#77 · Filter by author stitam opened on Jun 25, 2024

• Implement ncbi_get_meta() for proteins

  stitam/webseq#75 · Filter by author stitam opened on May 22, 2024

• AllTheBacteria

  stitam/webseq#71 · Filter by author stitam opened on Mar 13, 2024

• NCBI genome download sporadically fails with an error

  stitam/webseq#70 · Filter by author stitam opened on Feb 19, 2024

• Better parser for NCBI Assembly

  stitam/webseq#63 · Filter by author stitam opened on Feb 9, 2024

• Track db versions and access dates

  stitam/webseq#57 · Filter by author stitam opened on Jan 18, 2024