Open fran-romero-campero opened 7 months ago
I also want to get this.
dear @fran-romero-campero and @taein98
Conda repository works for me!
conda install bioconda::transrate
Note: Please ensure to create Python 3.8.0 virtual environment to address couple of dependencies.
Example:
conda create -n transrate python=3.8.0 source activate transrate conda install bioconda::transrate
$ transrate --help
[DEPRECATION] The trollop gem has been renamed to optimist and will no longer be supported. Please switch to optimist as soon as possible.
| | __ | | _
░▓▓▓^▓▓▓░ | || '|/ ` || ' \ / || '_|/ ` || |/ \ ░▓▓▓^▓▓▓░
░▓▓▓^▓▓▓░ | | | | | (| || | | |_ | | | (| || || / ░▓▓▓^▓▓▓░
░▓▓▓^▓▓▓░ _||| _,||| |||/|| _,| \|_| ░▓▓▓^▓▓▓░
Transrate v1.0.3
by Richard Smith-Unna, Chris Boursnell, Rob Patro,
Julian Hibberd, and Steve Kelly
DESCRIPTION:
Analyse a de-novo transcriptome assembly using three kinds of metrics:
Documentation at http://hibberdlab.com/transrate
USAGE:
transrate
OPTIONS:
--assembly= Assembly file(s) in FASTA format, comma-separated
--left= Left reads file(s) in FASTQ format, comma-separated
--right= Right reads file(s) in FASTQ format, comma-separated
--reference= Reference proteome or transcriptome file in FASTA format
--threads= Number of threads to use (default: 8)
--merge-assemblies= Merge best contigs from multiple assemblies into file
--output= Directory where results are output (will be created) (default: transrate_results)
--loglevel= Log level. One of [error, info, warn, debug] (default: info)
--install-deps= Install any missing dependencies. One of [read, ref, all]
--examples Show some example commands with explanations
I have tried to download the binary for linux v1.0.3 but the link seems to be broken.