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planemo upload for repository https://github.com/workflow4metabolomics/tools-metabolomics/blob/master/tools/influx_si/ commit 77b389c6f38fb8eb7d46366e7dd75b01229cc911
author workflow4metabolomics
date Wed, 13 Dec 2023 08:56:04 +0000
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2 Metabolic flux estimation 2 Metabolic flux estimation
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5 `influx_si` can be used for metabolic flux estimation based on labeling data from MS and/or NMR measurements. `influx_s` is used for stationary labeling and `influx_i` for instationary one (hence the '_s' and '_i' in the names). Tha name `influx_si` is used as common for both tools. 5 `influx_si` can be used for estimation of metabolic fluxes and concentrations based on labeling data from MS and/or NMR measurements. `influx_s` is used for stationary labeling and `influx_i` for instationary one (hence the '_s' and '_i' in the names). The name `influx_si` is used as common for both tools.
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7 The input for `influx_si` in one or several FTBL files, each describing a given labeling experiment and options to use during estimation. In addition, for `influx_i` a file with time course data has to be provided for each FTBL file. 7 The input for `influx_si` is an MTF (Multiple TSV Files) collection describing metabolic network, label transition, labeling data and options to use during estimation.
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9 The output is a zip archive with files generated by `influx_si`. Among the most important is file ending with `_res.kvh` which contains the main information about estimated parameters, their statistics and so on. 9 The output is a zip archive with files generated by `influx_si`. File ending with `.tvar.sim` which contains the estimated fluxes and concentrations. Other files ending with `.sim` contain simulated measurements. File ending with `.stat` has results of chi2 test assessing quality of fit.
10 If, in your FTBL file, you have requested ploting information, it can be found in respective .pdf file.
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12 For detailed documentation about `influx_si` and accompanying tools see https://metasys.insa-toulouse.fr/software/influx/doc/ 11 If, in your `.opt` file, you have requested plotting information (`plot_smeas.R` or `plot_ilab.R`), it can be found in the respective `.pdf` file.
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14 For getting a standalone version of `influx_si` see https://metasys.insa-toulouse.fr/software/influx/ 13 For detailed documentation about `influx_si` and accompanying tools see https://influx-si.readthedocs.io
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15 For getting a standalone version of `influx_si <https://anaconda.org/bioconda/influx_si>`_, you can install it e.g. with `conda <https://docs.conda.io/en/latest/miniconda.html>`_ package manager: ::
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17 conda install -c conda-forge -c bioconda influx_si
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16 Author: Serguei Sokol 19 Author: Serguei Sokol
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18 License: GPL2 21 License: GPL2
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20 © INRAE 2020 23 © INRAE/INSA/CNRS 2023