Update YAML files and Markdown table

container/README.md

@@ -64,7 +64,7 @@ On occasion, you may see errors that a download or upload has failed while build
 | snpsift | [Link](http://pcingola.github.io/SnpEff/) | [Link](https://anaconda.org/bioconda/snpsift) | bioinfo | 5.1 | bioconda | LGPL‑3.0‑or‑later |
 | 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 |
+| samtools | [Link](https://samtools.github.io/samtools/) | [Link](https://anaconda.org/bioconda/samtools) | dapars2, rna_quantification, leafcutter, quantas | 1.17 | bioconda | MIT |
 | 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 |
@@ -113,6 +113,7 @@ On occasion, you may see errors that a download or upload has failed while build
 | polyfun | [Link](https://github.com/omerwe/polyfun) | [Link](https://anaconda.org/dnachun/polyfun) | polyfun | 1 | dnachun | MIT |
 | bioconductor-psichomics | [Link](https://bioconductor.org/packages/release/bioc/html/psichomics.html) | [Link](https://anaconda.org/bioconda/bioconductor-psichomics) | psichomics | 1.26.0 | bioconda | MIT AND Other |
 | suppa | [Link](https://pypi.org/project/SUPPA/) | [Link](https://anaconda.org/bioconda/suppa) | psichomics | 2.3 | bioconda | MIT |
+| quantas | [Link](https://github.com/chaolinzhanglab/quantas) | [Link](https://anaconda.org/dnachun/quantas) | quantas | 1.1.2 | dnachun | Other |
 | r-mashr | [Link](https://github.com/stephenslab/mashr) | [Link](https://anaconda.org/dnachun/r-mashr) | quantqtl | 0.2.73 | dnachun | BSD‑3‑Clause |
 | r-plink2r | [Link](https://github.com/gabraham/plink2R) | [Link](https://anaconda.org/dnachun/r-plink2r) | quantqtl | 1.1 | dnachun | Other |
 | r-profvis | [Link](https://rstudio.github.io/profvis/) | [Link](https://anaconda.org/conda-forge/r-profvis) | quantqtl | | conda‑forge | GPL‑3.0‑or‑later |

container/quantas/quantas.yml

@@ -0,0 +1,44 @@
+name: quantas
+channels:
+ - dnachun
+ - conda-forge
+ - bioconda
+ - nodefaults
+dependencies:
+ - quantas=1.1.2
+ - samtools=1.17
+ - 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

container/readme/containers.md

@@ -14,7 +14,7 @@
 | snpsift | [Link](http://pcingola.github.io/SnpEff/) | [Link](https://anaconda.org/bioconda/snpsift) | bioinfo | 5.1 | bioconda | LGPL‑3.0‑or‑later |
 | 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 |
+| samtools | [Link](https://samtools.github.io/samtools/) | [Link](https://anaconda.org/bioconda/samtools) | dapars2, rna_quantification, leafcutter, quantas | 1.17 | bioconda | MIT |
 | 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 |
@@ -63,6 +63,7 @@
 | polyfun | [Link](https://github.com/omerwe/polyfun) | [Link](https://anaconda.org/dnachun/polyfun) | polyfun | 1 | dnachun | MIT |
 | bioconductor-psichomics | [Link](https://bioconductor.org/packages/release/bioc/html/psichomics.html) | [Link](https://anaconda.org/bioconda/bioconductor-psichomics) | psichomics | 1.26.0 | bioconda | MIT AND Other |
 | suppa | [Link](https://pypi.org/project/SUPPA/) | [Link](https://anaconda.org/bioconda/suppa) | psichomics | 2.3 | bioconda | MIT |
+| quantas | [Link](https://github.com/chaolinzhanglab/quantas) | [Link](https://anaconda.org/dnachun/quantas) | quantas | 1.1.2 | dnachun | Other |
 | r-mashr | [Link](https://github.com/stephenslab/mashr) | [Link](https://anaconda.org/dnachun/r-mashr) | quantqtl | 0.2.73 | dnachun | BSD‑3‑Clause |
 | r-plink2r | [Link](https://github.com/gabraham/plink2R) | [Link](https://anaconda.org/dnachun/r-plink2r) | quantqtl | 1.1 | dnachun | Other |
 | r-profvis | [Link](https://rstudio.github.io/profvis/) | [Link](https://anaconda.org/conda-forge/r-profvis) | quantqtl | | conda‑forge | GPL‑3.0‑or‑later |