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Annotation Files
saracarsanaro edited this page Jul 16, 2024
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This is where we will explain the content of the annotation files, describe each column, if it's mandatory or not, etc.
| Column Name | Description | Limitations | Required? |
|---|---|---|---|
| #experimentId | ID associated with the experiment | ? | Y |
| experimentName | name of experiment in data repository | ? | Y |
| experimentDescription | description of experiment in data repository | ? | Y |
| experimentSource | source data repository | SRA (for SRP, ERP and DRP IDs), GEO, ArrayExpress | Y |
| experimentStatus | annotation status of experiment | total, partial | ? |
| projectTags | ?? | ? | N |
| numberOfAnnotatedLibraries | number of libraries that were annotated | ? | ? |
| protocol | library prep protocol | ? | ? |
| protocolType | library prep method | full-length, 3' | ? |
| GSE | id associated with GEO entry | GSE followed by numbers | When Available |
| Bioproject | id associated with bioproject | PRJNA/PRJEB/PRJDB followed by numbers | When Available |
| PMID | id associated with paper that produced the data given by pubmed | 8 digits | When Available |
| reference_url | link to the paper that produced the data | hyperlink | When Available |
| DOI | the doi associated with the paper that produced the data | format is 10.nums/numsorletters | When Available |
| xrefs | other IDs associated with experiment | SRA (for SRP, ERP and DRP IDs), GEO, ArrayExpress, PMID, URL | When Available |
| comment | extra info input at annotator discretion | none | N |
| Column Name | Description | Limitations | Required? |
|---|---|---|---|
| #experimentId | ID associated with the experiment | ? | Y |
| experimentName | name of experiment in data repository | ? | Y |
| experimentDescription | description of experiment in data repository | ? | Y |
| experimentSource | source data repository | SRA, ENA, DDBJ, GEO, ArrayExpress | Y |
| experimentStatus | annotation status of experiment | total, partial | ? |
| RNAseqTags | ?? | scRNA-seq, sn-scRNA-seq | Y |
| numberOfAnnotatedLibraries | number of libraries that were annotated | ? | ? |
| protocol | library prep protocol | ? | ? |
| protocolType | library prep method | full-length, 3'end, 5'end | ? |
| GSE | id associated with GEO entry | GSE followed by numbers | When Available |
| Bioproject | id associated with bioproject | PRJNA/PRJEB/PRJDB followed by numbers | When Available |
| PMID | id associated with paper that produced the data given by pubmed | 8 digits | When Available |
| reference_url | link to the paper that produced the data | hyperlink | When Available |
| DOI | the doi associated with the paper that produced the data | format is 10.nums/numsorletters | When Available |
| xrefs | other IDs associated with experiment | SRA, ENA, DDBJ, GEO, ArrayExpress, PMID, URL | When Available |
| comment | extra info input at annotator discretion | none | N |