See #3497

See #3497

instead of creating a new file, write the information under reads ->
distribution

to fix execution time.

the barplot had nothing to do with a genescan and is just an example.

See #3452

Refactor the function to work like vidjil works. Write the output to a
file with the suffix vidjil.extra

takes a min threshold and returns a dict with the number of clones
per locus above the percentage threshold of the total reads for that locus.

See #3454

See #3456

We don't want files to appear multiple times if they are present in
multiple sample sets. In order to achieve this, we retrieve the
information from the results_file and group all the sample_sets into an
array for each results_file. A new SetDecorator displays the list of
sets how we want them.
See 3407

Feature c/3325 display codons

Closes #3325

See merge request !296

Close #3325.

See #3325.
Could be improved, there are string manipulations here.

See #3485. Same technique than in 8af03769.

See #3325.

(could be later bikesheded)

Resolve "Extraire/tester isProductive/referencePhase dans clone.js"

Closes #3483

See merge request !295

This is a bit tricky, we should warn coders properly.
And we test that this is actually the case.

See c3bbaf4c

See #3483

Feature c/2056 display synonymous mutations

Closes #2056

See merge request !232