diff --git a/container/README.md b/container/README.md index a67d57d3..8f501491 100644 --- a/container/README.md +++ b/container/README.md @@ -64,6 +64,7 @@ On occasion, you may see errors that a download or upload has failed while build | bcftools | [Link](https://samtools.github.io/bcftools/) | [Link](https://anaconda.org/bioconda/bcftools) | bioinfo, apex, fastenloc, pcatools, rare_variation, factor_analysis | 1.17 | bioconda | GPL‑3.0‑or‑later | | dapars2 | [Link](https://github.com/cumc/xqtl-protocol) | [Link](https://anaconda.org/dnachun/dapars2) | dapars2 | 1 | dnachun | Other | | samtools | [Link](https://samtools.github.io/samtools/) | [Link](https://anaconda.org/bioconda/samtools) | dapars2, rna_quantification, leafcutter | 1.17 | bioconda | MIT | +| king | [Link](http://people.virginia.edu/~wc9c/KING/) | [Link](https://anaconda.org/bioconda/king) | dnachun | 2.3.0 | bioconda | GPL‑3.0‑or‑later | | bioconductor-impute | [Link](https://bioconductor.org/packages/3.18/bioc/html/impute.html) | [Link](https://anaconda.org/bioconda/bioconductor-impute) | factor_analysis | 1.76.0 | bioconda | GPL‑2.0‑only | | bioconductor-mofa2 | [Link](https://bioconductor.org/packages/3.16/bioc/html/MOFA2.html) | [Link](https://anaconda.org/bioconda/bioconductor-mofa2) | factor_analysis | 1.10.0 | bioconda | LGPL‑3.0‑or‑later | | mofapy2 | [Link](https://anaconda.org/dnachun/mofapy2) | [Link](https://anaconda.org/dnachun/mofapy2) | factor_analysis | 0.7.0 | dnachun | GPL‑3.0‑or‑later | diff --git a/container/containers.csv b/container/containers.csv index 33c90ae5..56829900 100644 --- a/container/containers.csv +++ b/container/containers.csv @@ -3,6 +3,7 @@ apex,https://github.com/corbinq/apex,C/C++,0.2-alpha,63b605e00766141693a69eee6d6 htslib,http://www.htslib.org/,C/C++,,N/A,bioconda,"apex, factor_analysis, bioinfo, methylation, pcatools, pecotmr, quantqtl, tensorqtl",MIT,https://anaconda.org/bioconda/htslib, gcta,https://yanglab.westlake.edu.cn/software/gcta/#Overview,C/C++,1.94.1,N/A,bioconda,bioinfo,GPL-3.0-only,https://anaconda.org/bioconda/gcta, plink2,https://www.cog-genomics.org/plink/2.0/,C/C++,2.00a3.7,N/A,bioconda,bioinfo,GPL-3.0-or-later,https://anaconda.org/bioconda/plink2, +king,http://people.virginia.edu/~wc9c/KING/,C/C++,2.3.0,N/A,bioconda,dnachun,GPL-3.0-or-later,https://anaconda.org/bioconda/king, qtl,https://pypi.org/project/qtl/,Python,0.1.9,N/A,dnachun,bioinfo,BSD-3-Clause,https://anaconda.org/dnachun/qtl,Fix license info r-bedtoolsr,https://github.com/PhanstielLab/bedtoolsr,R,2.30.0.2,N/A,bioconda,bioinfo,MIT,https://anaconda.org/bioconda/r-bedtoolsr, r-foreach,https://cran.r-project.org/web/packages/foreach/index.html,R,1.5.2,N/A,conda-forge,bioinfo,Apache-2.0,https://anaconda.org/conda-forge/r-foreach, diff --git a/container/dnachun/dnachun.yml b/container/dnachun/dnachun.yml new file mode 100644 index 00000000..d090453b --- /dev/null +++ b/container/dnachun/dnachun.yml @@ -0,0 +1,43 @@ +name: dnachun +channels: + - dnachun + - conda-forge + - bioconda + - nodefaults +dependencies: + - king=2.3.0 + - altair + - awscli + - bash_kernel + - feather-format + - formulaic + - imageio + - ipykernel + - jupyter_contrib_nbextensions + - jupyterlab + - jupyterlab-sos + - markdown-kernel + - matplotlib + - nbdime + - notebook + - numpy + - openpyxl + - pandas + - parallel + - plotnine + - ptpython + - pytables + - r-irkernel + - r-languageserver + - r-tidyverse + - rpy2 + - scikit-learn + - scipy + - seaborn + - sos + - sos-bash + - sos-notebook + - sos-pbs + - sos-python + - statsmodels + - wand diff --git a/container/readme/containers.md b/container/readme/containers.md index 65d187b0..74f11a7d 100644 --- a/container/readme/containers.md +++ b/container/readme/containers.md @@ -14,6 +14,7 @@ | bcftools | [Link](https://samtools.github.io/bcftools/) | [Link](https://anaconda.org/bioconda/bcftools) | bioinfo, apex, fastenloc, pcatools, rare_variation, factor_analysis | 1.17 | bioconda | GPL‑3.0‑or‑later | | dapars2 | [Link](https://github.com/cumc/xqtl-protocol) | [Link](https://anaconda.org/dnachun/dapars2) | dapars2 | 1 | dnachun | Other | | samtools | [Link](https://samtools.github.io/samtools/) | [Link](https://anaconda.org/bioconda/samtools) | dapars2, rna_quantification, leafcutter | 1.17 | bioconda | MIT | +| king | [Link](http://people.virginia.edu/~wc9c/KING/) | [Link](https://anaconda.org/bioconda/king) | dnachun | 2.3.0 | bioconda | GPL‑3.0‑or‑later | | bioconductor-impute | [Link](https://bioconductor.org/packages/3.18/bioc/html/impute.html) | [Link](https://anaconda.org/bioconda/bioconductor-impute) | factor_analysis | 1.76.0 | bioconda | GPL‑2.0‑only | | bioconductor-mofa2 | [Link](https://bioconductor.org/packages/3.16/bioc/html/MOFA2.html) | [Link](https://anaconda.org/bioconda/bioconductor-mofa2) | factor_analysis | 1.10.0 | bioconda | LGPL‑3.0‑or‑later | | mofapy2 | [Link](https://anaconda.org/dnachun/mofapy2) | [Link](https://anaconda.org/dnachun/mofapy2) | factor_analysis | 0.7.0 | dnachun | GPL‑3.0‑or‑later |