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Swain Lab
wela
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1 year ago
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pswain
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# Wela
A package to analyse output from aliby.
A package to analyse output from
`
aliby
`
.
W
ela uses the h5 files created by aliby to
cre
ate a dataframe and save this dataframe as a text file.
`w
ela
`
uses the h5 files created by
`
aliby
`
to
gener
ate a dataframe and save this dataframe as a text file.
With
W
ela, you can use a Gaussian process to generate single-cell growth rates.
With
`w
ela
`
, you can use a Gaussian process to generate single-cell growth rates.
W
ela includes plotting routines for common tasks, such as kymographs and plotting single lineages for one ALCATRAS trap.
`w
ela
`
includes plotting routines for common tasks, such as kymographs and plotting single lineages for one ALCATRAS trap.
## Installing
Clone the gitlab repository and install with poetry.
Clone the gitlab repository and install with
`
poetry
`
.
## Getting started
There are example scripts in
`wela/examples`
.
Use
Consult
-
`create_tsv.py`
to
see how to
generate a tsv file of the data
-
`plot_kymograph.py`
to
see how to
generate a kymograph
-
`run_gr.py`
to
learn how to
estimate single-cell growth rates.
-
`create_tsv.py`
to generate a tsv
(tab separated value)
file of the data
-
`plot_kymograph.py`
to generate a kymograph
-
`run_gr.py`
to estimate single-cell growth rates.
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