Add ANCOM-BC2 wrapper

.gitignore

@@ -76,4 +76,3 @@ output.summary.txt
 
 # Version file from versioningit
 _version.py
-

ci/pip_requirements.txt

@@ -1 +1,2 @@
 biom-format
+rpy2

conda-recipe/meta.yaml

@@ -1,46 +1,47 @@
 package:
   name: q2-composition
-  version: {{ PLUGIN_VERSION }}
+  version: { { PLUGIN_VERSION } }
 source:
   path: ..
 build:
   script: make install
 requirements:
   host:
-  - python {{ python }}
-  - setuptools
-  - versioningit
-  - wheel
+    - python {{ python }}
+    - setuptools
+    - versioningit
+    - wheel
   run:
-  - python {{ python }}
-  - scikit-bio {{ scikit_bio }}
-  - biom-format {{ biom_format }}
-  - scipy {{ scipy }}
-  - pandas {{ pandas }}
-  - formulaic
-  - bioconductor-phyloseq
-  - bioconductor-ancombc
-  - r-tidyverse
-  - r-optparse
-  - r-frictionless
-  - qiime2 {{ qiime2_epoch }}.*
-  - q2templates {{ qiime2_epoch }}.*
-  - q2-types {{ qiime2_epoch }}.*
-  - altair
+    - python {{ python }}
+    - scikit-bio {{ scikit_bio }}
+    - biom-format {{ biom_format }}
+    - scipy {{ scipy }}
+    - pandas {{ pandas }}
+    - formulaic
+    - bioconductor-phyloseq
+    - bioconductor-ancombc
+    - r-tidyverse
+    - r-optparse
+    - r-frictionless
+    - qiime2 {{ qiime2_epoch }}.*
+    - q2templates {{ qiime2_epoch }}.*
+    - q2-types {{ qiime2_epoch }}.*
+    - altair
+    - rpy2 {{ rpy2 }}
   build:
-  - setuptools
-  - versioningit
+    - setuptools
+    - versioningit
 test:
   requires:
-  - qiime2 >={{ qiime2 }}
-  - q2templates >={{ q2templates }}
-  - q2-types >={{ q2_types }}
-  - pytest
+    - qiime2 >={{ qiime2 }}
+    - q2templates >={{ q2templates }}
+    - q2-types >={{ q2_types }}
+    - pytest
   imports:
-  - q2_composition
-  - qiime2.plugins.composition
+    - q2_composition
+    - qiime2.plugins.composition
   commands:
-  - py.test --pyargs q2_composition
+    - py.test --pyargs q2_composition
 about:
   home: https://qiime2.org
   license: BSD-3-Clause

q2_composition/__init__.py

@@ -15,6 +15,7 @@
 from ._impute import add_pseudocount
 from ._ancom import ancom
 from ._ancombc import ancombc
+from ._ancombc2 import ancombc2
 from ._dataloaf_tabulate import tabulate
 from ._diff_abundance_plots import da_barplot
 
@@ -25,4 +26,4 @@
 
 __all__ = ['FrictionlessCSVFileFormat', 'DataPackageSchemaFileFormat',
            'DataLoafPackageDirFmt', 'DifferentialAbundance', 'add_pseudocount',
-           'ancom', 'ancombc', 'tabulate', 'da_barplot']
+           'ancom', 'ancombc', 'ancombc2', 'tabulate', 'da_barplot']