{
  "id": 451890,
  "title": "Ribonanza data update and quick starter",
  "url": "/competitions/stanford-ribonanza-rna-folding/discussion/451890",
  "author_name": "",
  "post_date": "2023-10-30T22:49:04.009003200Z",
  "votes": 12,
  "comment_count": 8,
  "views": 0,
  "content": "<p>Hi Kagglers, hope you are enjoying the Ribonanza challenge so far! We have found some  discrepancies regarding <code>SN_filter</code> and <code>reactivity_error</code> in <code>train.csv</code> and have updated <code>train.csv</code> and put the old version to <code>OLD/train.csv</code>. This should only have minimal impact in terms of modeling. For more details, see:<br>\n<a href=\"https://www.kaggle.com/competitions/stanford-ribonanza-rna-folding/discussion/451158\" target=\"_blank\">https://www.kaggle.com/competitions/stanford-ribonanza-rna-folding/discussion/451158</a></p>\n<p>Additionally, we have created a <code>train_QUICK_START.csv</code>, which only has sequences that pass <code>SN_filter</code> in both DMS/2A3. See competition data page for this filtered version of train data. </p>\n<p>We have also created a starter notebook showing how to load and filter data, do some simple modeling, and make a submission:<br>\n<a href=\"https://www.kaggle.com/code/shujun717/ribonanza-starter\" target=\"_blank\">https://www.kaggle.com/code/shujun717/ribonanza-starter</a></p>\n<p>I am also including some notebooks that I think will be helpful in getting started:<br>\n<a href=\"https://www.kaggle.com/code/vivekgediya/stanford-ribonanza-rna-folding-median\" target=\"_blank\">https://www.kaggle.com/code/vivekgediya/stanford-ribonanza-rna-folding-median</a><br>\n<a href=\"https://www.kaggle.com/code/rgieseking/ribonanza-baseline-average-per-nucleotide-acgu\" target=\"_blank\">https://www.kaggle.com/code/rgieseking/ribonanza-baseline-average-per-nucleotide-acgu</a><br>\n<a href=\"https://www.kaggle.com/code/iafoss/rna-starter-0-186-lb\" target=\"_blank\">https://www.kaggle.com/code/iafoss/rna-starter-0-186-lb</a><br>\n<a href=\"https://www.kaggle.com/code/martynoveduard/save-csv-faster-using-polars\" target=\"_blank\">https://www.kaggle.com/code/martynoveduard/save-csv-faster-using-polars</a></p>",
  "messages": [
    {
      "id": "2505874",
      "postDate": "10/30/2023 22:49:04",
      "content": "<p>Hi Kagglers, hope you are enjoying the Ribonanza challenge so far! We have found some  discrepancies regarding <code>SN_filter</code> and <code>reactivity_error</code> in <code>train.csv</code> and have updated <code>train.csv</code> and put the old version to <code>OLD/train.csv</code>. This should only have minimal impact in terms of modeling. For more details, see:<br>\n<a href=\"https://www.kaggle.com/competitions/stanford-ribonanza-rna-folding/discussion/451158\" target=\"_blank\">https://www.kaggle.com/competitions/stanford-ribonanza-rna-folding/discussion/451158</a></p>\n<p>Additionally, we have created a <code>train_QUICK_START.csv</code>, which only has sequences that pass <code>SN_filter</code> in both DMS/2A3. See competition data page for this filtered version of train data. </p>\n<p>We have also created a starter notebook showing how to load and filter data, do some simple modeling, and make a submission:<br>\n<a href=\"https://www.kaggle.com/code/shujun717/ribonanza-starter\" target=\"_blank\">https://www.kaggle.com/code/shujun717/ribonanza-starter</a></p>\n<p>I am also including some notebooks that I think will be helpful in getting started:<br>\n<a href=\"https://www.kaggle.com/code/vivekgediya/stanford-ribonanza-rna-folding-median\" target=\"_blank\">https://www.kaggle.com/code/vivekgediya/stanford-ribonanza-rna-folding-median</a><br>\n<a href=\"https://www.kaggle.com/code/rgieseking/ribonanza-baseline-average-per-nucleotide-acgu\" target=\"_blank\">https://www.kaggle.com/code/rgieseking/ribonanza-baseline-average-per-nucleotide-acgu</a><br>\n<a href=\"https://www.kaggle.com/code/iafoss/rna-starter-0-186-lb\" target=\"_blank\">https://www.kaggle.com/code/iafoss/rna-starter-0-186-lb</a><br>\n<a href=\"https://www.kaggle.com/code/martynoveduard/save-csv-faster-using-polars\" target=\"_blank\">https://www.kaggle.com/code/martynoveduard/save-csv-faster-using-polars</a></p>",
      "rawMarkdown": "Hi Kagglers, hope you are enjoying the Ribonanza challenge so far! We have found some  discrepancies regarding `SN_filter` and `reactivity_error` in `train.csv` and have updated `train.csv` and put the old version to `OLD/train.csv`. This should only have minimal impact in terms of modeling. For more details, see:\nhttps://www.kaggle.com/competitions/stanford-ribonanza-rna-folding/discussion/451158\n\nAdditionally, we have created a `train_QUICK_START.csv`, which only has sequences that pass `SN_filter` in both DMS/2A3. See competition data page for this filtered version of train data. \n\nWe have also created a starter notebook showing how to load and filter data, do some simple modeling, and make a submission:\nhttps://www.kaggle.com/code/shujun717/ribonanza-starter\n\nI am also including some notebooks that I think will be helpful in getting started:\nhttps://www.kaggle.com/code/vivekgediya/stanford-ribonanza-rna-folding-median\nhttps://www.kaggle.com/code/rgieseking/ribonanza-baseline-average-per-nucleotide-acgu\nhttps://www.kaggle.com/code/iafoss/rna-starter-0-186-lb\nhttps://www.kaggle.com/code/martynoveduard/save-csv-faster-using-polars",
      "votes": null
    },
    {
      "id": "2505876",
      "postDate": "10/30/2023 23:06:02",
      "content": "<p>Hi </p>\n<p>The starter notebook link is currently inaccessible</p>\n<p><img src=\"https://www.googleapis.com/download/storage/v1/b/kaggle-forum-message-attachments/o/inbox%2F15850416%2F7379077c6b932b845247471f78726039%2Finaccessible%20.png?generation=1698707117188274&amp;alt=media\" alt=\"\"></p>",
      "rawMarkdown": "Hi \n\nThe starter notebook link is currently inaccessible\n\n![](https://www.googleapis.com/download/storage/v1/b/kaggle-forum-message-attachments/o/inbox%2F15850416%2F7379077c6b932b845247471f78726039%2Finaccessible%20.png?generation=1698707117188274&alt=media)",
      "votes": null
    },
    {
      "id": "2505887",
      "postDate": "10/30/2023 23:50:28",
      "content": "<p>Fixed! Thanks for catching it</p>",
      "rawMarkdown": "Fixed! Thanks for catching it",
      "votes": null
    },
    {
      "id": "2506083",
      "postDate": "10/31/2023 04:41:12",
      "content": "<p>kaggle competitions download -c stanford-ribonanza-rna-folding<br>\n404 - Not Found - no gcs url</p>",
      "rawMarkdown": "kaggle competitions download -c stanford-ribonanza-rna-folding\n404 - Not Found - no gcs url",
      "votes": null
    },
    {
      "id": "2507013",
      "postDate": "10/31/2023 17:35:47",
      "content": "<p>Looking into this now!</p>",
      "rawMarkdown": "Looking into this now!",
      "votes": null
    },
    {
      "id": "2507015",
      "postDate": "10/31/2023 17:37:36",
      "content": "<p>Individual file download from the data page still seems to be working on my end. Can you try that? Maybe try just downloading <code>train_QUICK_START.csv</code> from the data page?</p>",
      "rawMarkdown": "Individual file download from the data page still seems to be working on my end. Can you try that? Maybe try just downloading `train_QUICK_START.csv` from the data page?",
      "votes": null
    },
    {
      "id": "2507042",
      "postDate": "10/31/2023 18:04:02",
      "content": "<p>I see a download all in the data page but that also doesn't work.  Can you provide a link to the page you are talking about or a terminal command?  It all seems broken.</p>",
      "rawMarkdown": "I see a download all in the data page but that also doesn't work.  Can you provide a link to the page you are talking about or a terminal command?  It all seems broken.",
      "votes": null
    },
    {
      "id": "2507713",
      "postDate": "11/01/2023 07:53:43",
      "content": "<ul>\n<li>If there are separate files, then on the <strong>data</strong> page on the right side of the Data Explorer -&gt; go to the desired file -&gt; press the down arrow button \"Download\"</li>\n<li>If “Download All” - they talk about it <a href=\"https://www.kaggle.com/competitions/stanford-ribonanza-rna-folding/discussion/452061\" target=\"_blank\">here</a></li>\n</ul>",
      "rawMarkdown": "If there are separate files, then on the **data** page on the right side of the Data Explorer -> go to the desired file -> press the down arrow button \"Download\"\n- If “Download All” - they talk about it [here](https://www.kaggle.com/competitions/stanford-ribonanza-rna-folding/discussion/452061)",
      "votes": null
    },
    {
      "id": "2508092",
      "postDate": "11/01/2023 13:22:11",
      "content": "<p>Hi, </p>\n<p>Thanks for the update, just want to point out to fellow competitors that the file train_data.csv have 3 different versions, the initial version, the updated one from a week ago and the current version.</p>\n<p><img src=\"https://www.googleapis.com/download/storage/v1/b/kaggle-forum-message-attachments/o/inbox%2F14573416%2F6979845ed785cb3114704bd20275165d%2FScreenshot%20from%202023-11-01%2014-24-48.png?generation=1698845102578083&amp;alt=media\" alt=\"\"></p>",
      "rawMarkdown": "Hi, \n\nThanks for the update, just want to point out to fellow competitors that the file train_data.csv have 3 different versions, the initial version, the updated one from a week ago and the current version.\n\n![](https://www.googleapis.com/download/storage/v1/b/kaggle-forum-message-attachments/o/inbox%2F14573416%2F6979845ed785cb3114704bd20275165d%2FScreenshot%20from%202023-11-01%2014-24-48.png?generation=1698845102578083&alt=media)",
      "votes": null
    }
  ],
  "comments": [
    {
      "id": 2505876,
      "author_name": "varunmanojgupta",
      "author_url": "",
      "post_date": "10/30/2023 23:06:02",
      "content": "<p>Hi </p>\n<p>The starter notebook link is currently inaccessible</p>\n<p><img src=\"https://www.googleapis.com/download/storage/v1/b/kaggle-forum-message-attachments/o/inbox%2F15850416%2F7379077c6b932b845247471f78726039%2Finaccessible%20.png?generation=1698707117188274&amp;alt=media\" alt=\"\"></p>",
      "votes": null,
      "replies": [
        {
          "id": 2505887,
          "author_name": "shujun717",
          "author_url": "",
          "post_date": "10/30/2023 23:50:28",
          "content": "<p>Fixed! Thanks for catching it</p>",
          "votes": null,
          "replies": [
            {
              "id": 2506083,
              "author_name": "darrintaylor",
              "author_url": "",
              "post_date": "10/31/2023 04:41:12",
              "content": "<p>kaggle competitions download -c stanford-ribonanza-rna-folding<br>\n404 - Not Found - no gcs url</p>",
              "votes": null,
              "replies": [
                {
                  "id": 2507013,
                  "author_name": "shujun717",
                  "author_url": "",
                  "post_date": "10/31/2023 17:35:47",
                  "content": "<p>Looking into this now!</p>",
                  "votes": null,
                  "replies": [
                    {
                      "id": 2507015,
                      "author_name": "shujun717",
                      "author_url": "",
                      "post_date": "10/31/2023 17:37:36",
                      "content": "<p>Individual file download from the data page still seems to be working on my end. Can you try that? Maybe try just downloading <code>train_QUICK_START.csv</code> from the data page?</p>",
                      "votes": null,
                      "replies": [
                        {
                          "id": 2507042,
                          "author_name": "darrintaylor",
                          "author_url": "",
                          "post_date": "10/31/2023 18:04:02",
                          "content": "<p>I see a download all in the data page but that also doesn't work.  Can you provide a link to the page you are talking about or a terminal command?  It all seems broken.</p>",
                          "votes": null,
                          "replies": [
                            {
                              "id": 2507713,
                              "author_name": "sapr3s",
                              "author_url": "",
                              "post_date": "11/01/2023 07:53:43",
                              "content": "<ul>\n<li>If there are separate files, then on the <strong>data</strong> page on the right side of the Data Explorer -&gt; go to the desired file -&gt; press the down arrow button \"Download\"</li>\n<li>If “Download All” - they talk about it <a href=\"https://www.kaggle.com/competitions/stanford-ribonanza-rna-folding/discussion/452061\" target=\"_blank\">here</a></li>\n</ul>",
                              "votes": null,
                              "replies": []
                            }
                          ]
                        }
                      ]
                    }
                  ]
                }
              ]
            }
          ]
        }
      ]
    },
    {
      "id": 2508092,
      "author_name": "enriquezaf",
      "author_url": "",
      "post_date": "11/01/2023 13:22:11",
      "content": "<p>Hi, </p>\n<p>Thanks for the update, just want to point out to fellow competitors that the file train_data.csv have 3 different versions, the initial version, the updated one from a week ago and the current version.</p>\n<p><img src=\"https://www.googleapis.com/download/storage/v1/b/kaggle-forum-message-attachments/o/inbox%2F14573416%2F6979845ed785cb3114704bd20275165d%2FScreenshot%20from%202023-11-01%2014-24-48.png?generation=1698845102578083&amp;alt=media\" alt=\"\"></p>",
      "votes": null,
      "replies": []
    }
  ],
  "raw_markdown_by_id": {
    "2505874": "Hi Kagglers, hope you are enjoying the Ribonanza challenge so far! We have found some  discrepancies regarding `SN_filter` and `reactivity_error` in `train.csv` and have updated `train.csv` and put the old version to `OLD/train.csv`. This should only have minimal impact in terms of modeling. For more details, see:\nhttps://www.kaggle.com/competitions/stanford-ribonanza-rna-folding/discussion/451158\n\nAdditionally, we have created a `train_QUICK_START.csv`, which only has sequences that pass `SN_filter` in both DMS/2A3. See competition data page for this filtered version of train data. \n\nWe have also created a starter notebook showing how to load and filter data, do some simple modeling, and make a submission:\nhttps://www.kaggle.com/code/shujun717/ribonanza-starter\n\nI am also including some notebooks that I think will be helpful in getting started:\nhttps://www.kaggle.com/code/vivekgediya/stanford-ribonanza-rna-folding-median\nhttps://www.kaggle.com/code/rgieseking/ribonanza-baseline-average-per-nucleotide-acgu\nhttps://www.kaggle.com/code/iafoss/rna-starter-0-186-lb\nhttps://www.kaggle.com/code/martynoveduard/save-csv-faster-using-polars",
    "2505876": "Hi \n\nThe starter notebook link is currently inaccessible\n\n![](https://www.googleapis.com/download/storage/v1/b/kaggle-forum-message-attachments/o/inbox%2F15850416%2F7379077c6b932b845247471f78726039%2Finaccessible%20.png?generation=1698707117188274&alt=media)",
    "2505887": "Fixed! Thanks for catching it",
    "2506083": "kaggle competitions download -c stanford-ribonanza-rna-folding\n404 - Not Found - no gcs url",
    "2507013": "Looking into this now!",
    "2507015": "Individual file download from the data page still seems to be working on my end. Can you try that? Maybe try just downloading `train_QUICK_START.csv` from the data page?",
    "2507042": "I see a download all in the data page but that also doesn't work.  Can you provide a link to the page you are talking about or a terminal command?  It all seems broken.",
    "2507713": "If there are separate files, then on the **data** page on the right side of the Data Explorer -> go to the desired file -> press the down arrow button \"Download\"\n- If “Download All” - they talk about it [here](https://www.kaggle.com/competitions/stanford-ribonanza-rna-folding/discussion/452061)",
    "2508092": "Hi, \n\nThanks for the update, just want to point out to fellow competitors that the file train_data.csv have 3 different versions, the initial version, the updated one from a week ago and the current version.\n\n![](https://www.googleapis.com/download/storage/v1/b/kaggle-forum-message-attachments/o/inbox%2F14573416%2F6979845ed785cb3114704bd20275165d%2FScreenshot%20from%202023-11-01%2014-24-48.png?generation=1698845102578083&alt=media)"
  },
  "source": "meta"
}