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4 Registration
robertprior-fixstars edited this page Sep 18, 2019
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This stage performs affine registration on the normalized input. For each round a summedNorm directory is created containing a mat file containing a list of keypoints which are used to warp the rounds to the reference round (chosen in loadParameters.m). For the reference round symlinks are created for each color channel (appending _affine to the file name) to the files produced by the normalization step. For the other rounds new images are created which are registered to the reference round.
- 1 Setup Cluster
- 2 Color Correction
- 3 Normalization
- 4 Registration
- 5 Puncta Extraction
- 6 Base Calling
- Performance Profile
- Example Batching
- Summary Reporting (link to page) / Analysis (link to page) All of above would be bullet points but thought each folder with useful scripts in the repository would have its own page with example usages and descriptions for the files under the given directory. Unsure on this as haven't used anything under these directories directly myself (i.e not through runPipeline) apart from tests/perf-profile/summarize-stat-logs.sh. Should any of these have a separate page? Note have not made pages for this yet as not sure how many should be made or if this break down makes sense.
- Troubleshooting