Commit a5031058 authored by Mathieu Giraud's avatar Mathieu Giraud

doc: typos

parent e7571ba0
Pipeline #147502 passed with stages
in 2 minutes and 3 seconds
......@@ -134,7 +134,7 @@ then followed by the J gene `TRGJ1*02`, with `6` nucleotides deleted at its star
- A clone with a plus symbol `+` has been detected in that sample,
but with only a few reads, typically less than five.
Its concentration ratio is thus not significant, and
this clone would appear in the gray zone in the ple graph.
this clone would appear in the gray zone in the sample graph.
- A clone with a minus symbol `−` has not been detected in that sample,
but has been detected in another sample that is not currently displayed.
......@@ -179,9 +179,9 @@ It shows the most frequent clones of each sample, tracked into every sample.
At the top-right of the graph, a button such as `5/8`
shows how many samples are displayed (here `5`) and the total number of samples (here `8`).
This button reveals a menu where
any samples can be selected (single click),
or shown or hidden (double click),
as well as options to show or hide all samples.
each sample can be selected (single click),
shown or hidden (double click),
as well as options to show or to hide all samples.
- If your dataset contains sampling dates (for example for diagnosis/follow-up samples), you can switch between sample keys and dates in “settings \> sample key”
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......@@ -519,7 +519,7 @@ The web application provides other options to inspect clones and cluster them.
The `--cluster-epsilon` option triggers an automatic clustering using the
[DBSCAN](https://en.wikipedia.org/wiki/DBSCAN) algorithm (Ester and al., 1996).
Using `--cluster-epsilon 5` usually clusters reads within a distance of 1 mismatch (default score
being +1 for a match and -4 for a mismatch). With that option, more distant reads with also
being +1 for a match and -4 for a mismatch). With that option, more distant reads will also
be clustered as soon there are more than 10 reads within the distance threshold.
This behaviour can be controlled with the `-cluster-N` option.
......
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