Metabuli v1.0.5

The CMake file was edited to pass the Bioconda PR test.
Other than that it is the same as v1.0.4.

Metabuli v1.0.4

• Fixed a minor reproducibility issue.
• Fixed a performance-harming bug occurring with sequences containing lowercased bases.
• Auto adjustment of --match-per-kmer parameter. Issue #20 solved.
• Record version info. in db.parameter

Metabuli v1.0.3

• New parameter: --tie-ratio in classify module. [default 0.95]
  When the best matching species has a score MAX, species with score >= (MAX * --tie-ratio) is considered as a tie to the best score. When tie species occur for a read, the read is classified into their LCA.

Metabuli v1.0.2

v1.0.2

• --accession-level option for build and classify workflow: It reports not only the taxon but also the accession of the best match.
• Fix minor bugs in build and classify workflow.
• Generate taxonomyDB during build and load it during classify workflow for faster loading of taxonomy information.
• Support gzipped FASTA/FASTQ files in add-to-library and classify workflows.
• low-complexity filtering in build workflow as default with --mask-prob 0.9.

Metabuli v1.0.1

• Fixed memory-related bugs.
• classify generates a Krona report file.
• New option of classify: Low-complexity masking by --mask and --mask-prob (#20)
• New option of classify: --match-per-kmer option in classify workflow (#20)
• databases downloads DBs as tar.gz and unzips them.
• classify ignores reads shorter than 26 nt.
• database-report generates a report of taxa included in a database.

Metabuli v1.0.0

It is the first release of Metabuli.

Metabuli is a metagenomic classifier that jointly analyze both DNA and amino-acid sequences to achieve high specificity and sensitivity at the same time. It is implemented based on a novel k-mer structure, metamer, to efficiently index and compare sequences at both DNA and amino-acid level.