- recipe polap
POLAP: plant organelle long-read assembly pipeline
- Homepage:
- Documentation:
- License:
GPL / GPL-3.0-or-later
- Recipe:
- package polap¶
- versions:
0.3.7.2-0,0.3.7.1-0,0.3.7-1,0.3.7-0,0.2.6-0,0.2.4-0- depends assembly-stats:
- depends bedtools:
- depends bioawk:
- depends bioconductor-ggtree:
- depends blast:
- depends clustalw:
- depends csvtk:
- depends entrez-direct:
- depends flye:
>=2.9.2- depends gfastats:
- depends gfatools:
- depends icu:
- depends kmer-jellyfish:
- depends libxml2:
- depends minimap2:
>=2.24- depends networkx:
- depends orthofinder:
- depends pandas:
- depends parallel:
- depends perl:
- depends perl-xml-libxml:
- depends progressivemauve:
- depends python:
- depends r-base:
- depends r-dplyr:
- depends r-optparse:
- depends r-readr:
- depends r-stringr:
- depends r-tidyr:
- depends samtools:
- depends seqkit:
- depends seqtk:
- depends sra-tools:
- requirements:
Installation
You need a conda-compatible package manager (currently either micromamba, mamba, or conda) and the Bioconda channel already activated (see set-up-channels).
While any of above package managers is fine, it is currently recommended to use either micromamba or mamba (see here for installation instructions). We will show all commands using mamba below, but the arguments are the same for the two others.
Given that you already have a conda environment in which you want to have this package, install with:
mamba install polap and update with:: mamba update polap
To create a new environment, run:
mamba create --name myenvname polap
with
myenvnamebeing a reasonable name for the environment (see e.g. the mamba docs for details and further options).Alternatively, use the docker container:
docker pull quay.io/biocontainers/polap:<tag> (see `polap/tags`_ for valid values for ``<tag>``)
Download stats¶
Link to this page¶
Render an 
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