feat: diffexp returns two genesets (#2230)

* feat: return two lists for diffexp (#2221)

* sp

* split out derive sort order, tests passing

* sp

* return diff exp results in two lists

* update

* copy implementation over to desktop

* add tests for two lists

* small fixes to complete backend implementation

* accept new diffexp response

* map diff exp response to genesets

* delete )

* name diffexp genesets with population names

* take constants out of state and allow width prop to override

* shorten mini-histo properly truncate and resize depending on expansion

* prepend new genesets

* rename data within diffexp action

* backend

* move diffexp ttest to common code module, update tests

* update for unit tests

* reference actual var

Co-authored-by: Madison Dunitz <madison.dunitz@chanzuckerberg.com>
Co-authored-by: Madison Dunitz <dunitzm@gmail.com>
This commit is contained in:
Severiano Badajoz
2021-06-08 21:02:19 +00:00
committed by GitHub
co-authored by Madison Dunitz Madison Dunitz
parent 7ed53c0f5b
commit 28b526b3fc
25 changed files with 268 additions and 284 deletions
+7 -2
View File
@@ -68,7 +68,7 @@ class DataAdaptor(metaclass=ABCMeta):
@abstractmethod
def compute_embedding(self, method, filter):
"""compute a new embedding on the specified obs subset, and return the embedding schema. """
"""compute a new embedding on the specified obs subset, and return the embedding schema."""
pass
@abstractmethod
@@ -324,7 +324,12 @@ class DataAdaptor(metaclass=ABCMeta):
):
raise ExceedsLimitError("Diffexp request exceeds max cell count limit")
result = self.compute_diffexp_ttest(obs_mask_A, obs_mask_B, top_n, self.dataset_config.diffexp__lfc_cutoff)
result = self.compute_diffexp_ttest(
maskA=obs_mask_A,
maskB=obs_mask_B,
top_n=top_n,
lfc_cutoff=self.dataset_config.diffexp__lfc_cutoff,
)
try:
return jsonify_numpy(result)