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GencoDymo2

INFRA · APIS
Velocity0.0

Comprehensive Analysis of 'GENCODE' Annotations and Splice Site Motifs

github.com/monahton/GencoDymo2 ↗

A GENCODE annotation toolkit spent its first year getting out of CRAN's way.

bioinformaticsgenomicsgencoder-packagecranmaintenance
◆Current state
GencoDymo2 extracts, compares and analyses GENCODE genome annotations and generates splice-site motif FASTA files. It describes itself as a modified remake of the earlier GencoDymo package. Three releases exist: the initial one, a dependency and CRAN-compatibility pass, and a one-line fix for a dplyr update.
◆Where it's heading
Nothing in the visible history extends what the package analyses. The work after the initial release is about being installable and checkable — moving the human genome package out of hard dependencies, guarding genome access behind requireNamespace(), and keeping examples light enough for CRAN checks. That is the shape of a package settling into distribution rather than developing, and the fourteen months covered here produced two maintenance releases.
◆Prediction
The entries give no signal of planned feature work; on this history the next release is most likely another compatibility fix triggered by an upstream package change rather than new analysis capability.

◆Recent moves

  1. 7mo ago

    GencoDymo2 v1.0.4

    A single missing global variable declaration, contributed upstream to keep the package working against a dplyr update. Reactive maintenance of exactly the kind this package's short history is made of.

    View source ↗
  2. 1y ago

    GencoDymo2 v1.0.2

    The hard dependency on the hg38 human genome package moves to Suggests, with genome access guarded by requireNamespace() and examples trimmed so CRAN checks do not pull genome-scale data. Presented as bug fixes, but the practical effect is a much lighter install for anyone who does not need the bundled genome.

    View source ↗
  3. 1y ago

    GencoDymo2 v1.0.1

    The initial release, offering extraction, comparison and analysis of GENCODE annotations plus splice-site motif FASTA generation. It names itself a modified remake of the existing GencoDymo package, so this is a successor arriving rather than a capability appearing for the first time.

    View source ↗