<p>The data processing section doesn't mention using UMIs at all, so it's likely there were none (whether they'll be present depends on how the libraries are made, with lower throughput methods being less likely to include them). The values are stated as being expected counts from <a href="https://deweylab.github.io/RSEM/" rel="nofollow noreferrer">RSEM</a>, which is why they're not always integers.</p>

CC BY-SA 4.0
2018-09-06T20:27:39.010Z
2018-09-06T20:27:39.010Z
Devon Ryan
<p>I thought that <code>UMI</code> counts are always integers, but when I opened several datasets provided by <code>GEO</code> I got confused because in some articles they provide <code>counts</code> that are supposedly non-normalized raw <code>UMI</code> count values, but they are not integers. For instance: <a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSM2043231" rel="nofollow noreferrer">GSM2043231</a> or <a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE77067" rel="nofollow noreferrer">GSE77067</a></p>

<p>Could anyone clarify, what these people mean by <code>abundance measurements</code>? </p>

<scrnaseq><umi><geo>
Article GEO gives counts that are not integers. Should UMI counts be integers?
# Article GEO gives counts that are not integers. Should UMI counts be integers?

(Asked by: username_0 on 2018-09-06)

I thought that `UMI` counts are always integers, but when I opened several datasets provided by `GEO` I got confused because in some articles they provide `counts` that are supposedly non-normalized raw `UMI` count values, but they are not integers. For instance: [GSM2043231](https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSM2043231) or [GSE77067](https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE77067)

Could anyone clarify, what these people mean by `abundance measurements`?

**Tags:** scrnaseq, umi, geo

---

## 1 answers

### Answer by username_1 on 2018-09-06. Score: 3 | Accepted answer

The data processing section doesn't mention using UMIs at all, so it's likely there were none (whether they'll be present depends on how the libraries are made, with lower throughput methods being less likely to include them). The values are stated as being expected counts from [RSEM](https://deweylab.github.io/RSEM/), which is why they're not always integers.


---

