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Results tagged with normalization
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user 240
The tricky art of scaling quantitative data across libraries, typically to account for differences in sequencing depth. This can also be about scaling for read source length, like transcript or gene length, in order to enable comparisons across genes.
4
votes
Doubt about using TPM for statistics
This is a common question, and the answer is while you can calculate this, it's not statistically robust.
You're likely to arrive at false conclusions.
Why is this?
Because while TPM is something you …
- 1,394
2
votes
Why are TPMs per 10k or 100k in many scRNA-seq studies?
When studying demographics, you often need to account for the population size of a city or region (GDP per capita, is a good example).
Normalizing by $10^6$ people is a nice round number, but lots of …
- 1,394
1
vote
Accepted
Normalization methods to combine scRNA-seq experiments with different sequencing depths
Coincidentally, a recent preprint out of Lior Pacther's lab covers some of these details around scRNA-seq depth normalization. … They find that a "PFlog1pPF" normalization method is able to stabilize variance across genes while still reducing the impact of total cell depth on that variance. …
- 1,394