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README.md"}},{"before":"70a214038b5b02c170a3298e059c1d292a0c8879","after":"1dfc1665e478870bbe8a3a4f7699e78695df169a","ref":"refs/heads/main","pushedAt":"2023-11-21T13:00:52.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"Loucif-REMINI","name":"Loucif Remini","path":"/Loucif-REMINI","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/97965773?s=80&v=4"},"commit":{"message":"Add files via upload\n\n\r\n# Multiplexed FISH Data Analysis Script\r\n\r\nThis Python script, developed by Loucif Remini, Midas Segers, John Palmeri, Jean-Charles Walter, Andrea Parmeggiani, and Enrico Carlon, serves as a tool for the analysis of multiplexed FISH (Fluorescence In Situ Hybridization) data fro Bintu et al (2018). The script is designed to process data from a CSV file, providing comprehensive insights into chromatin structure based on the methodology outlined in the publication \"Chromatin structure from high-resolution microscopy: scaling laws and microphase separation\" by Remini et al. (2018).\r\n\r\n## Features\r\n\r\n- **Identification of Coexisting Chromatin Phases:**\r\n  The script generates evidence of two coexisting chromatin phases by analyzing pairwise probability distance distributions.\r\n\r\n- **Scaling Behavior Analysis:**\r\n  Explore the scaling behavior of the effective chromatin and distinct phases, offering valuable insights into the organization of chromatin structures.\r\n\r\n- **Phases Radii Summary:**\r\n  Visualize the phases radii for any pair of tags (i, j) through informative heatmaps, aiding in the interpretation of spatial relationships.\r\n\r\n- **Single Cell Analysis and Fit:**\r\n  The script provides a detailed single-cell analysis, including fitting procedures, to better understand chromatin behavior at the individual cell level.\r\n\r\n- **Beta Phase Position Prediction:**\r\n  Predict the position of the beta phase in single cells, enhancing predictive capabilities and contributing to a more nuanced understanding of chromatin dynamics.\r\n\r\n## Usage\r\n\r\nTo utilize the script, input your data in CSV format and execute the provided functions. The script will generate visualizations and summaries, offering a comprehensive overview of your multiplexed FISH data.\r\n\r\n## Publication Reference\r\n\r\nThe script is based on the methodology outlined in the publication \"Chromatin structure from high-resolution microscopy: scaling laws and microphase separation\" by Remini et al. (2023).\r\n\r\n## Date\r\n\r\nThis script was last updated on November 18, 2023.\r\n\r\n## How to Cite\r\n\r\nIf you find this script helpful in your research, please consider citing the related publication.","shortMessageHtmlLink":"Add files via upload"}},{"before":"a759f82a959a7f20e2f2023af3bfbcaa14033e4f","after":"70a214038b5b02c170a3298e059c1d292a0c8879","ref":"refs/heads/main","pushedAt":"2023-11-20T12:21:39.000Z","pushType":"push","commitsCount":1,"pusher":{"login":"Loucif-REMINI","name":"Loucif Remini","path":"/Loucif-REMINI","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/97965773?s=80&v=4"},"commit":{"message":"Add files via upload","shortMessageHtmlLink":"Add files via upload"}},{"before":null,"after":"a759f82a959a7f20e2f2023af3bfbcaa14033e4f","ref":"refs/heads/main","pushedAt":"2023-11-09T01:30:09.000Z","pushType":"branch_creation","commitsCount":0,"pusher":{"login":"Loucif-REMINI","name":"Loucif Remini","path":"/Loucif-REMINI","primaryAvatarUrl":"https://avatars.githubusercontent.com/u/97965773?s=80&v=4"},"commit":{"message":"Add files via upload","shortMessageHtmlLink":"Add files via upload"}}],"hasNextPage":false,"hasPreviousPage":false,"activityType":"all","actor":null,"timePeriod":"all","sort":"DESC","perPage":30,"cursor":"djE6ks8AAAADtjKZjwA","startCursor":null,"endCursor":null}},"title":"Activity · Loucif-REMINI/polymer-model-analyses-of-chromatin-mFISH-data"}