- Agalma is an automated tool that constructs matrices for
phylogenomic analyses, allowing complex phylogenomic analyses to be implemented and described unambiguously as a series of high-level commands. The user provides raw Illumina transcriptome data, and Agalma produces annotated assemblies, aligned gene sequence matrices, a preliminary phylogeny, and detailed diagnostics that allow the investigator to make extensive assessments of intermediate analysis steps and the final results. Sequences from other sources, such as externally assembled genomes and transcriptomes, can also be incorporated in the analyses. Agalma is built on the BioLite bioinformatics framework, which tracks provenance, profiles processor and memory use, records diagnostics, manages metadata, installs dependencies, logs version numbers and calls to external programs, and enables rich HTML reports for all stages of the analysis. Agalma includes a small test data set and a built-in test analysis of these data.
1 maintainer
Metadata
1 maintainer
Release files for agalma 1.0.0
For a detailed explanation of source distributions (sdists) and built distributions (wheels), please see the package formats documentation.
Source distribution (sdist)
| File | Size | Uploaded | Provenance | Actions |
|---|---|---|---|---|
| agalma-1.0.0.tar.gz | 106.9 kB | Without provenance | Details for agalma-1.0.0.tar.gz |
Release files / agalma-1.0.0.tar.gz
| Download URL | agalma-1.0.0.tar.gz |
|---|---|
| Size | 106.9 kB |
| Tags | Source |
|
SHA-256 checksum How to use checksums |
cd58d8d84a82f129d520326649b3b6b6143708fdcd58e049cc160eb485968753
|
|
BLAKE2b-256 checksum How to use checksums |
65b3f0dc1cc006d9bf1ec59d7f42eaca4da144410abfb0cfaf3a4f6d79fd6131
|
| Upload date | |
|
Uploaded using Trusted Publishing? What is trusted publishing? |
No |
Security for agalma 1.0.0
Provenance
Provenance describes where a file came from. On PyPI, provenance is shared via attestations, which provide a verifiable record of the build or publishing details. View details, limitations and caveats.
No provenance found
None of the files in this release were uploaded with provenance metadata.
A note on package security
PyPI is a repository for distributing packages, not a service for auditing them. While third-party security researchers and our staff do their best to detect and remove malicious packages, PyPI cannot guarantee the quality, security or suitability of any given package.
To learn more about protecting yourself from malicious actors, visit our package security documentation.
