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meta.yaml
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meta.yaml
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{% set version = "2.0.0" %}
{% set name = "bambu" %}
{% set bioc = "3.14" %}
package:
name: 'bioconductor-{{ name|lower }}'
version: '{{ version }}'
source:
url:
- 'https://bioconductor.org/packages/{{ bioc }}/bioc/src/contrib/{{ name }}_{{ version }}.tar.gz'
- 'https://bioarchive.galaxyproject.org/{{ name }}_{{ version }}.tar.gz'
- 'https://depot.galaxyproject.org/software/bioconductor-{{ name }}/bioconductor-{{ name }}_{{ version }}_src_all.tar.gz'
md5: fd82ba68f68a7385bf9fc8d7cbb1b289
build:
number: 0
rpaths:
- lib/R/lib/
- lib/
# Suggests: AnnotationDbi, Biostrings, rmarkdown, BiocFileCache, ggplot2, ComplexHeatmap, circlize, ggbio, gridExtra, knitr, testthat, BSgenome.Hsapiens.NCBI.GRCh38, TxDb.Hsapiens.UCSC.hg38.knownGene, ExperimentHub (>= 1.15.3), DESeq2, NanoporeRNASeq, BSgenome, apeglm, utils, DEXSeq
requirements:
host:
- 'bioconductor-biocgenerics >=0.40.0,<0.41.0'
- 'bioconductor-biocparallel >=1.28.0,<1.29.0'
- 'bioconductor-genomeinfodb >=1.30.0,<1.31.0'
- 'bioconductor-genomicalignments >=1.30.0,<1.31.0'
- 'bioconductor-genomicfeatures >=1.46.0,<1.47.0'
- 'bioconductor-genomicranges >=1.46.0,<1.47.0'
- 'bioconductor-iranges >=2.28.0,<2.29.0'
- 'bioconductor-rsamtools >=2.10.0,<2.11.0'
- 'bioconductor-s4vectors >=0.32.0,<0.33.0'
- 'bioconductor-summarizedexperiment >=1.24.0,<1.25.0'
- r-base
- r-data.table
- r-dplyr
- r-rcpp
- r-rcpparmadillo
- r-tidyr
- r-xgboost
- libblas
- liblapack
run:
- 'bioconductor-biocgenerics >=0.40.0,<0.41.0'
- 'bioconductor-biocparallel >=1.28.0,<1.29.0'
- 'bioconductor-genomeinfodb >=1.30.0,<1.31.0'
- 'bioconductor-genomicalignments >=1.30.0,<1.31.0'
- 'bioconductor-genomicfeatures >=1.46.0,<1.47.0'
- 'bioconductor-genomicranges >=1.46.0,<1.47.0'
- 'bioconductor-iranges >=2.28.0,<2.29.0'
- 'bioconductor-rsamtools >=2.10.0,<2.11.0'
- 'bioconductor-s4vectors >=0.32.0,<0.33.0'
- 'bioconductor-summarizedexperiment >=1.24.0,<1.25.0'
- r-base
- r-data.table
- r-dplyr
- r-rcpp
- r-rcpparmadillo
- r-tidyr
- r-xgboost
build:
- {{ compiler('c') }}
- {{ compiler('cxx') }}
- make
test:
commands:
- '$R -e "library(''{{ name }}'')"'
about:
home: 'https://bioconductor.org/packages/{{ bioc }}/bioc/html/{{ name }}.html'
license: 'GPL-3 + file LICENSE'
summary: 'Reference-guided isoform reconstruction and quantification for long read RNA-Seq data'
description: 'bambu is a R package for multi-sample transcript discovery and quantification using long read RNA-Seq data. You can use bambu after read alignment to obtain expression estimates for known and novel transcripts and genes. The output from bambu can directly be used for visualisation and downstream analysis such as differential gene expression or transcript usage.'
license_file: LICENSE