AirLocalize_Data_Process

Script to process AirLocalize data.

How to use

Run python3 main.py -h for help with arguments
Naming needs to be consistent with the following format: *{channel_name}{keyword}.loc4 where keyword can be somatic/pcell for example. Assumes input files are loc4 files which is the output file extension from AirLocalize
Path 1 and Path 2 are provided to be used to calculate desired median intenstiy from 1 or more folders

excel file containing following information
1. RNA Per Spot In Somatic, P-Cell, or Granules.
2. Co-localization of spots between RNA in 2 granules
3. Output file will be stored in directory: Spots_Data_{filename}{channel_name}{key_word}_{is_granule}.xlsx
  - Do not use very long names for keyword/channel_name/is_granule/filename for a complete file name
Output from granule_process.py; stored in separated location; {image_num}_input.csv
Output from co_localize.py to be inputted into spot_process.py eg. Img-4_C1_colocalized

Name		Name	Last commit message	Last commit date
Latest commit History 6 Commits
README.md		README.md
co_localize.py		co_localize.py
granule_process.py		granule_process.py
main.py		main.py
spot_process.py		spot_process.py