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
@@ -163,7 +163,7 @@ class DataAdaptor(metaclass=ABCMeta):
mask = np.zeros((count,), dtype=np.bool)
for i in filter:
if type(i) == list:
mask[i[0] : i[1]] = True
mask[i[0]: i[1]] = True
else:
mask[i] = True
return mask
@@ -321,11 +321,12 @@ class DataAdaptor(metaclass=ABCMeta):
top_n = self.dataset_config.diffexp__top_n
if self.server_config.exceeds_limit(
"diffexp_cellcount_max", np.count_nonzero(obs_mask_A) + np.count_nonzero(obs_mask_B)
"diffexp_cellcount_max", np.count_nonzero(obs_mask_A) + np.count_nonzero(obs_mask_B)
):
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)