Release 0.1.5

• add ability to convert segmentation masks to a label image
• If in_place=True, we should return None (#1473)
• Bump to slicedimage 4.0.1 (#1458)
• on-demand loading of data. (#1456)
• Remove Cli (#1444)

Release 0.1.4

• Update in-place experiment writing to use the new WriterContract API in slicedimage 4.0.0 (#1447)
• data set formatter with fixed filenames (#1421)

Release 0.1.3

• Instantiate the multiprocessing pool using with (#1436)
• Slight optimization of pixel decoding (#1412)
• [easy] point starfish.data.osmFISH() to new dataset (#1425)
• [easy] Warn about the deprecation of the MaxProject filter (#1390)

Release - 0.1.2

• Refactor reduce to take an optional module and only a function name. (#1386)
• Codify the expectation that in-place experiment construction does not rely on TileFetcher data (#1389)
• Warn and return empty SpotAttributes when PixelDecoding finds 0 spots (#1400)
• updating data.merfish link to full dataset (#1406)
• Rename tile_coordinates to tile_identifier (#1401)
• Support for irregular images in the builder (#1382)
• Fix how we structure the run notebook rules. (#1384)
• updated loading data docs and added image of napari viewer (#1387)
• Format complete ISS experiment and expose in starfish.data (#1316)
• Add concatenate method for ExpressionMatrix (#1381)
• Add TransformsList repr (#1380)
• Fix 3d smFISH notebook as well. (#1385)
• Add custom clip Filter classes (#1376)
• Fix smFISH notebook. (#1383)
• Add Filter.Reduce (general dimension reduction for ImageStack) (#1342)
• Handle denormalized numbers when normalizing intensities/codebooks (#1371)
• TileFetcher formats complete 496 fov MERFISH dataset (#1341)
• Refactor fov.getImage() to fov.getImages() (#1346)
• Add the ability to write labeled experiments (#1374)
• Add inplace TileFetcher module back to public builder API (#1375)
• Always create Z coordinates, even on 4D datasets. (#1358)
• Create an all-purpose ImageStack factory (#1348)
• Remove physical_coordinate_calculator.py (#1352)
• ImageStack parsers should provide coordinates as an array (#1351)
• bump to slicedimage 3.1.1 (#1343)
• Creating a standard starfish.wdl that can be run with any recipe file (#1364)

Release 0.1.0

• public/private separation (#1244)
• Recipe and recipe execution (#1192)
• 3d smFISH notebook (#1238)
• SeqFISH notebook (#1239)
• Adding windows install instructions (#1227)
• vectorize labeling spot lookups (#1215)
• vectorize imagestack -> intensity_table coordinate transfer (#1212)
• Fix the restoration of non-indexed axes. (#1189)
• Allow for intensity tables with labeled axes (#1181)
• ImageStack select on Physical Coordinates (#1147)
• fixing Clip.SCALE_BY_IMAGE (#1193)
• Update BaristaSeq text, fix LinearUnmixing (#1188)
• Update STARmap notebook for SpaceJam (#1199)
• replace label images with segmentation masks (#1135)
• BaristaSeq + Plot tools update (#1171)
• Intensity Table Concat Processing (#1118)

Release 0.0.36

• Update strict requirements (#1142)
• High level goal: detect spots should accept imagestacks and not numpy arrays. (#1143)
• Remove cropping from PixelSpotDetector, (#1120)
• Add LocalSearchBlobDetector to support BaristaSeq, SeqFISH, STARmap (#1074)
• Indirect File click types (#1124)
• Move the registration tests next to their sources. (#1134)
• Test to verify that inplace experiment construction works. (#1131)
• Additional support code for building experiments in-place. (#1127)

Release 0.0.35

• Transfer physical Coords to Expression Matrix (#965)
• Support for hierarchical directory structures for experiments. (#1126)
• Pipeline Components: LearnTransform and ApplyTransform (#1083)
• Restructure the relationship between PipelineComponent and AlgorithmBase (#1095)

Release 0.0.34

• Adding ability to pass aligned group to Imagestack.from_path_or_url (#1069)
• Add Decoded Spot Table (#1087)
• Enable appending to existing napari viewer in display() (#1093)
• Change tile shape to a dict by default (#1072)
• Add ElementWiseMult Filter Pipeline Component (#983)
• Add linear unmixing pipeline component (#1056)
• Spiritual Bag of Images Refactor: Part 1 (#986)
• Add to provenance log (#968)

Release 0.0.33

Loosen pip requirements (#997)
Add validate xarray command (#984)

Release 0.0.32

Too many things have changed....