WormBase / WormBase/ACKnowledge
Parse Supplementary Table 1 from WBPaper00068221 for genes studied?
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- Dominant language
- JavaScript
- Stars
- 3
- Forks
- 1
- PR merge metrics
- No merged PRs in 30d
Description
For WBPaper00068221, the author finished the submission but entered this comment:
I have a huge dataset of different genes. The current text box crashes when inputting a list of 4000 genes
Looking at the paper, Supplementary Table 1 lists the genes they reported on in this large-scale study.
The genes are listed in Column 1 which is pipe-separated like this:
AC3.3.1|cdna|chromosome:WBcel235:V:10380340:10381826:-1|gene:WBGene00000024.1|gene_biotype:protein_coding|transcript_biotype:protein_coding|gene_symbol:abu-1
We need to discuss how we might go about parsing these entries for inclusion in our gene-paper associations.
Contributor guide
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First steps
- Read the whole issue, then the project's contributing guide.
- Comment on the issue to say you are picking it up — it saves two people doing the same work.
- Fork the repository and make your change on a branch.
- Open a pull request that references the issue number.
Research direction
No files or tests are named. Start by locating the current submission text-box handling and the gene-paper association flow, then inspect Supplementary Table 1 for the pipe-separated entries described here. Done should be a documented, agreed approach for parsing the entries and including the genes in the associations.
Written by the indexing model from the issue text.
Assessment
- Tech stack
- javascript
- Domain
- data
- Issue type
- Feature
- Difficulty
- 5/5
- Estimated time
- Over a week
- Activity status
- Stale
- Clarity
- Needs clarification
- Newbie friendliness
- 30/100