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This macro is designed to work with 4 channel confocal images where channel 1 is a nuclear stain and the other three channels are RNAscope puncta stains. The macro extracts the nuclei and classifies cells as positive or negative for each RNAscope marker based on a user defined cuttoff. Individual cells are also processed to count the raw number of RNAscope spots for each channel.
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  • Software/Code
xraySTORM.py will output csv files of charge cloud properties (and hence x-ray photon properties), given an image with individually resolved charge clouds.
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  • Software/Code
This is a markdown README file containing codes to generate shield.io badge presenting figshare doi and figshare logo (Salvagno, 2012). The generated badge can be used in a GitHub README page (example). ReferenceSalvagno, Anthony (2012): Figshare logo. figshare. Fileset. https://doi.org/10.6084/m9.figshare.97662.v1
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  • Software/Code
This is a syntax (in English, Chinese, and Malay) for the e-questionnaire on collecting household social economic and disease cost data, to be used for the Open Data Kit (ODK) mobile application software running on an Android operating system. The development of the e-questionnaire utilized an open source mobile data collection application FormHub (Modi Research Group Colombia University). The questionnaire together with the consent form were restructured into an XLS spreadsheet using FormHub's XLSform. The e-questionnaire was used as a data collection tool in a research project that evaluated the economic burden of households living and managing diabetes, conducted in the South East Asia Community Observatory (SEACO, a demographic and health surveillance site operated by Monash University in Malaysia).
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  • Software/Code
Fiji/ImageJ macro developed to extract RNAScope foci and using a nuclear co-stain to provide counts of positive and negative cells.
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This contains the source code for the paper "Time series classification for varying series".
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  • Software/Code
R function to retrieve the occurrences of a pair of words in sentences. Further details on installation and examples of how to use the package are available at the package website or on GitHub. To cite this figshare repository, click on the dark pink Cite button, then browse through the drop-down, grey DataCite button to select the citation style.
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  • Software/Code
The R Markdown Notebook for the quantitative chapters in Rajeg's (2019a) PhD thesis on HAPPINESS metaphors in Indonesian (the source code is in the file named index.Rmd). The Notebook is deployed as a GitHub webpage and integrates the use of happyr package (Rajeg 2019b). Versioning of this repository is synchronised with Releases of its GitHub repository. How to CiteRajeg, Gede Primahadi Wijaya (2019): R Notebook for Metaphorical profiles and near-synonyms: A corpus-based study of Indonesian words for HAPPINESS. figshare. Code. doi: https://doi.org/10.26180/5cb65c06b1b17.The above citation is using the default DataCite style. Browse other styles by clicking-on the dark pink Cite button. References Rajeg, Gede Primahadi Wijaya. 2019a. Metaphorical profiles and near-synonyms: A corpus-based study of Indonesian words for happiness. Clayton, VIC: Monash University, Australia PhD thesis. doi:10.26180/5cac231a97fb1. Rajeg, Gede Primahadi Wijaya. 2019b. happyr: The accompanying R package for Rajeg’s (2019) PhD thesis titled “Metaphorical profiles and near-synonyms: A corpus-based study of Indonesian words for HAPPINESS.” R package version 0.1.1. doi:10.26180/5be404d6336da. https://gederajeg.github.io/happyr.
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  • Software/Code
Fiji/ImageJ macro for analysis of Immunoistochemical stains of nuclei with a green and red channel flurophore using a nuclear marker in blue.
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Collocates retriever and Collocation association measure This is an R package for retrieving collocates around a (set of) node/search word(s) and for measuring the association strength between the node/search word(s) and the collocates. The current version accepts input data of text from the sentence-based corpus of the (Indonesian) Leipzig Corpora Collection. This package is still under development. Versioning of this figshare repository is synchronised with the latest GitHub release of the package. For installation and further details, see the GitHub repository of the package and the package's website in the References section below. To cite the package, see here.
Data Types:
  • Software/Code