biopipen 0.34.9__py3-none-any.whl → 0.34.10__py3-none-any.whl

biopipen/__init__.py

@@ -1 +1 @@
-__version__ = "0.34.9"
+__version__ = "0.34.10"

biopipen/ns/scrna.py

@@ -118,6 +118,10 @@ class SeuratPreparing(Proc):
             It doesn't work when data is loaded from loom files.
         cell_qc: Filter expression to filter cells, using
             `tidyrseurat::filter()`.
+            It can also be a dictionary of expressions, where the names of the list are
+            sample names.
+            You can have a default expression in the list with the name "DEFAULT" for
+            the samples that are not listed.
             Available QC keys include `nFeature_RNA`, `nCount_RNA`,
             `percent.mt`, `percent.ribo`, `percent.hb`, and `percent.plat`.
 
@@ -782,7 +786,7 @@ class ModuleScoreCalculator(Proc):
             will perform diffusion map as a reduction and add the first 2
             components as `DC_1` and `DC_2` to the metadata. `diffmap` is a shortcut
             for `diffusion_map`. Other key-value pairs will pass to
-            [`destiny::DiffusionMap()`](https://www.rdocumentation.org/packages/destiny/versions/2.0.4/topics/DiffusionMap%20class).
+            [`destiny::DiffusionMap()`](https://www.rdocumentation.org/packages/destiny/versions/2.0.4/topics/DiffusionMap class).
             You can later plot the diffusion map by using
             `reduction = "DC"` in `env.dimplots` in `SeuratClusterStats`.
             This requires [`SingleCellExperiment`](https://bioconductor.org/packages/release/bioc/html/SingleCellExperiment.html)

{biopipen-0.34.9.dist-info → biopipen-0.34.10.dist-info}/METADATA

@@ -1,6 +1,6 @@
 Metadata-Version: 2.4
 Name: biopipen
-Version: 0.34.9
+Version: 0.34.10
 Summary: Bioinformatics processes/pipelines that can be run from `pipen run`
 License: MIT
 Author: pwwang

{biopipen-0.34.9.dist-info → biopipen-0.34.10.dist-info}/RECORD

@@ -1,4 +1,4 @@
-biopipen/__init__.py,sha256=zx5DRdGvH-gZCcW6m_sgJE0BiH5pc_-kR07ANPXxh70,23
+biopipen/__init__.py,sha256=u7r_X5RPL4hal_HhVAZpDtDz0JbAd6bKAwNi0BAOm5c,24
 biopipen/core/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
 biopipen/core/config.py,sha256=edK5xnDhM8j27srDzsxubi934NMrglLoKrdcC8qsEPk,1069
 biopipen/core/config.toml,sha256=lZV_vbYWk6uqm19ZWJcsZCcSNqAdIfN2fOfamzxZpg4,2148
@@ -22,7 +22,7 @@ biopipen/ns/plot.py,sha256=N41_izb6zi-XArUly5WhLebapNXbTNSgGlOCCwtrDlY,18282
 biopipen/ns/protein.py,sha256=YJtlKoHI2p5yHdxKeQnNtm5QrbxDGOq1UXOdt_7tlTs,6391
 biopipen/ns/regulatory.py,sha256=WlnX_R8jEFyxCjk8mru5Qu5iCQJLzjMWiWGoc3gygzc,16221
 biopipen/ns/rnaseq.py,sha256=bKAa6friFWof4yDTWZQahm1MS-lrdetO1GqDKdfxXYc,7708
-biopipen/ns/scrna.py,sha256=-pW0noyhqocHwoN4mF6ZYegfryc5H_l4AB53EQ2e-UE,146055
+biopipen/ns/scrna.py,sha256=ts8yust_YJBb-95Wl59KbEfStML3Eb4fmZInpfatXGc,146298
 biopipen/ns/scrna_metabolic_landscape.py,sha256=EwLMrsj_pTqvyAgtHLoishjQxCg_j8n5OofuTofUph0,22096
 biopipen/ns/snp.py,sha256=iXWrw7Lmhf4_ct57HGT7JGTClCXUD4sZ2FzOgsC2pTg,28123
 biopipen/ns/stats.py,sha256=DlPyK5Vsg6ZEkV9SDS3aAw21eXzvOHgqeZDkXPhg7go,20509
@@ -284,7 +284,7 @@ biopipen/utils/misc.py,sha256=pDZ-INWVNqHuXYvcjmu8KqNAigkh2lsHy0BxX44CPvc,4048
 biopipen/utils/reference.py,sha256=Oc6IlA1giLxymAuI7DO-IQLHQ7-DbsWzOQE86oTDfMU,5955
 biopipen/utils/reporter.py,sha256=VwLl6xyVDWnGY7NEXyqBlkW8expKJoNQ5iTyZSELf5c,4922
 biopipen/utils/vcf.py,sha256=MmMbAtLUcKPp02jUdk9TzuET2gWSeoWn7xgoOXFysK0,9393
-biopipen-0.34.9.dist-info/METADATA,sha256=aYXqI1hITAFJ1bhVKyz2toplmcj0oNdfKqa3JU-poBw,1026
-biopipen-0.34.9.dist-info/WHEEL,sha256=zp0Cn7JsFoX2ATtOhtaFYIiE2rmFAD4OcMhtUki8W3U,88
-biopipen-0.34.9.dist-info/entry_points.txt,sha256=BYqHGBQJxyFDNLYqgH64ycI5PYwnlqwYcCFsMvJgzAU,653
-biopipen-0.34.9.dist-info/RECORD,,
+biopipen-0.34.10.dist-info/METADATA,sha256=IeN3Cn85Wko4l4ANyDPAxcKF1P5eJQ1SRyBxTfPg6b8,1027
+biopipen-0.34.10.dist-info/WHEEL,sha256=zp0Cn7JsFoX2ATtOhtaFYIiE2rmFAD4OcMhtUki8W3U,88
+biopipen-0.34.10.dist-info/entry_points.txt,sha256=BYqHGBQJxyFDNLYqgH64ycI5PYwnlqwYcCFsMvJgzAU,653
+biopipen-0.34.10.dist-info/RECORD,,