YEAT 0.6.1

[0.6.1] 2024-07-02

Changed

• Updated --grid and --grid-args arguments and Snakemake to be compatible with SLURM (#79)

YEAT 0.6

Added

• Hybrid assembly support (#68, #73)
• just-yeat-it CLI command for simple paired-end runs (#74)
• yeat-auto CLI command for auto-populating the sample section of the config file (#76)
• Customize downsample, depth of coverage, and genome size per sample (#77)

YEAT 0.5

Added

• Unicycler algorithm for long-read only assembly (#55)
• metaMDBG algorithm for PacBio-HiFi reads (#59)
• DRMAA grid support (#65)

Changed

• Updated config input file format (#64)

YEAT 0.4

Added

• Input fastq read support:
  • Pacbio raw and corrected reads (#47)
  • Oxford Nanopore raw, corrected, and HAC reads (#47)
  • Single-end Illumina reads (#50)
• Support for Nanopore-reads assembly with Flye and Canu (#47, #50)
• New assemblers:
  • Hifiasm and Hifiasm-meta (#49)

YEAT 0.3

Added

• Support for Bandage (#34)
• Support for basic PacBio HiFi-reads assembly with Flye and Canu (#37)

Changed

• Config file to enable:
  • Support for multi-input samples (#43)
  • Running multiple assembly algorithm with labels (#43)

YEAT 0.2

Added

• Support for FastQC (#5)
• Support for MEGAHIT (#13)
• Support for Unicycler (#14)
• Support for assembly configuration file (#16)
• Commands to run a short or long test suite (#20)
• Custom downsampling flag (#21)
• Custom coverage flag (#23)
• Custom seed flag (#29)
• 3.9 Python version pin for exit_on_error parameter and 3.10's incompatibility with SPAdes <v3.15.4 (#23, #29)
• Custom genome size flag (#30)

Fixed

• Support for uncompressed input files (#31)

YEAT 0.1

Initial release!