Hi Team
\nI see a lot of python notebooks here ,but Iam familiar with R and would want to convert all my train and test images into jpeg.Can someone help me with reference articles or steps I can follow?
\nThanks in advance for your time
\nRegards
\nGayathri
Hi Team
\nI see a lot of python notebooks here ,but Iam familiar with R and would want to convert all my train and test images into jpeg.Can someone help me with reference articles or steps I can follow?
\nThanks in advance for your time
\nRegards
\nGayathri
There's a R Task View for Medical Image Analysis. As that task view points out, there's several packages that can read dicom files: oro.dicom, divest, fmri and tractor.base (I've also heard of Radtools (but know next to nothing about it). E.g. the oro.dicom package comes with a nice introductory vignette that explains how to get started and also shows how to visualize plots. Once you have the array that defines the image in a dicom, that is essentially the same thing as a bmp image - sure, you may have to rescale it to 0:255 and may want to normalize it, but you can more or less hand it to the image function (see e.g. here and here). You should be able to save that by enclosing printing that image in jpeg(...) with the desired options and dev.off().
You may also want to do a search whether someone else has already done all of this for you (assuming you like/trust their work).
", "rawMarkdown": "There's a R Task View for [Medical Image Analysis](https://cran.r-project.org/web/views/MedicalImaging.html). As that task view points out, there's several packages that can read dicom files: oro.dicom, divest, fmri and tractor.base (I've also heard of `Radtools` (but know next to nothing about it). E.g. the oro.dicom package comes with a nice introductory [vignette](https://cran.r-project.org/web/packages/oro.dicom/vignettes/dicom.pdf) that explains how to get started and also shows how to visualize plots. Once you have the array that defines the image in a dicom, that is essentially the same thing as a bmp image - sure, you may have to rescale it to 0:255 and may want to normalize it, but you can more or less hand it to the `image` function (see e.g. [here](https://www.rdocumentation.org/packages/graphics/versions/3.6.2/topics/image) and [here](https://stackoverflow.com/questions/59023354/how-do-i-write-a-matrix-as-a-raw-bitmap-in-r)). You should be able to save that by enclosing printing that image in `jpeg(...)` with the desired options and `dev.off()`.\n\nYou may also want to do [a search](https://www.kaggle.com/search?q=VinBigData+in%3Adatasets) whether someone else has already done all of this for you (assuming you like/trust their work).", "replies": [ { "id": 1195176, "postDate": "2021-02-10T15:42:59.577Z", "content": "Thanks a lot Bjorn.I will check them out.
", "rawMarkdown": "Thanks a lot Bjorn.I will check them out. " } ] }, { "id": 1194811, "postDate": "2021-02-10T11:36:06.393Z", "content": "Hi, I suggest you to take a look to the R package \"jpeg\" which contains the function \"writeJPEG\". Here there is the documentation with examples: https://cran.r-project.org/web/packages/jpeg/jpeg.pdf Good luck!
", "rawMarkdown": "Hi, I suggest you to take a look to the R package \"jpeg\" which contains the function \"writeJPEG\". Here there is the documentation with examples: https://cran.r-project.org/web/packages/jpeg/jpeg.pdf Good luck!", "replies": [ { "id": 1195177, "postDate": "2021-02-10T15:43:13.967Z", "content": "Thanks Jorge.
", "rawMarkdown": "Thanks Jorge." } ] } ], "comments": [ { "id": 1194932, "author_name": "Björn", "author_url": "", "post_date": "2021-02-10T13:15:18.870000", "content": "There's a R Task View for Medical Image Analysis. As that task view points out, there's several packages that can read dicom files: oro.dicom, divest, fmri and tractor.base (I've also heard of Radtools (but know next to nothing about it). E.g. the oro.dicom package comes with a nice introductory vignette that explains how to get started and also shows how to visualize plots. Once you have the array that defines the image in a dicom, that is essentially the same thing as a bmp image - sure, you may have to rescale it to 0:255 and may want to normalize it, but you can more or less hand it to the image function (see e.g. here and here). You should be able to save that by enclosing printing that image in jpeg(...) with the desired options and dev.off().
You may also want to do a search whether someone else has already done all of this for you (assuming you like/trust their work).
", "votes": 0, "replies": [ { "id": 1195176, "author_name": "Gayathri Nagarajan", "author_url": "", "post_date": "2021-02-10T15:42:59.577000", "content": "Thanks a lot Bjorn.I will check them out.
", "votes": 0, "replies": [] } ] }, { "id": 1194811, "author_name": "Jorge Bueno Perez", "author_url": "", "post_date": "2021-02-10T11:36:06.393000", "content": "Hi, I suggest you to take a look to the R package \"jpeg\" which contains the function \"writeJPEG\". Here there is the documentation with examples: https://cran.r-project.org/web/packages/jpeg/jpeg.pdf Good luck!
", "votes": 0, "replies": [ { "id": 1195177, "author_name": "Gayathri Nagarajan", "author_url": "", "post_date": "2021-02-10T15:43:13.967000", "content": "Thanks Jorge.
", "votes": 0, "replies": [] } ] } ], "raw_markdown_by_id": { "1194022": "Hi Team\n\nI see a lot of python notebooks here ,but Iam familiar with R and would want to convert all my train and test images into jpeg.Can someone help me with reference articles or steps I can follow?\n\nThanks in advance for your time\n\nRegards\nGayathri", "1194932": "There's a R Task View for [Medical Image Analysis](https://cran.r-project.org/web/views/MedicalImaging.html). As that task view points out, there's several packages that can read dicom files: oro.dicom, divest, fmri and tractor.base (I've also heard of `Radtools` (but know next to nothing about it). E.g. the oro.dicom package comes with a nice introductory [vignette](https://cran.r-project.org/web/packages/oro.dicom/vignettes/dicom.pdf) that explains how to get started and also shows how to visualize plots. Once you have the array that defines the image in a dicom, that is essentially the same thing as a bmp image - sure, you may have to rescale it to 0:255 and may want to normalize it, but you can more or less hand it to the `image` function (see e.g. [here](https://www.rdocumentation.org/packages/graphics/versions/3.6.2/topics/image) and [here](https://stackoverflow.com/questions/59023354/how-do-i-write-a-matrix-as-a-raw-bitmap-in-r)). You should be able to save that by enclosing printing that image in `jpeg(...)` with the desired options and `dev.off()`.\n\nYou may also want to do [a search](https://www.kaggle.com/search?q=VinBigData+in%3Adatasets) whether someone else has already done all of this for you (assuming you like/trust their work).", "1194811": "Hi, I suggest you to take a look to the R package \"jpeg\" which contains the function \"writeJPEG\". Here there is the documentation with examples: https://cran.r-project.org/web/packages/jpeg/jpeg.pdf Good luck!" } }