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MERFISH currently uses an old-style codebook and generates SpotAttributes, Encoder Table, and Decoder Table files & objects.
Update it to use IntensityTable and Codebook.
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Another odd failure while running `make fast`:
```
[gw4] [ 61%] FAILED starfish/test/full_pipelines/cli/test_iss.py::TestWithIssData::test_run_pipline
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It appears that in the Browser, the value in `*_protocol.protocol_core.protocol_id` is being used as a facet. This field contains a unique identifier for a protocol, and is not meaningful to be used a…
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**For which schema is a change/update being suggested?**
type/protocol/imaging/imaging_protocol.json
**What should the change/update be?**
This is an umbrella ticket covering a number of cha…
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To the uninitiated (aka me), it can take a while to understand whether the x-axis is the hybridization rounds and the y-axis is the channels, or vice versa.
![image](https://user-images.githubuser…
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Hi,
I tried a few notebooks and I can't rich the end of anyone I tried.
Let's focus on the allen_smFISH.ipynb here :
At the step 5
```
from starfish.pipeline.filter import Filter
s_clip = Fi…
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Currently it generates SpotAttributes and EncoderTable. Update this method.
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This example shows why:
```json
{ "short_label" : "U2OS Cells",
"long_label" : "Osteosarcoma from the tibia of a 15 year old",
"uuid" : "5f16b743defc4b5c8717f023f9921069",
"body_part" :
{…
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Dear MERFISH team,
would it be possible to provide the new example data as plain text/csv or excel files, in a format similar to the MHD4 and MHD2 data provided together with the original paper?
…
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Is this ever going to happen?