Metadata-Version: 2.1
Name: monviso
Version: 0.1.3
Summary: MoNvIso is a comprehensive software tool designed for the analysis and modeling of protein isoforms. It automates the process of identifying canonical and additional isoforms, assessing their modeling propensity, mapping mutations accurately, and building structural models of proteins.
Home-page: https://github.com/alisamalb/monviso_reloaded
Author: Ciskio
License: UNKNOWN
Description: # Monviso reloaded
        MoNvIso is a comprehensive software tool designed for the analysis and modeling of protein isoforms. It automates the process of identifying canonical and additional isoforms, assessing their modeling propensity, mapping mutations accurately, and building structural models of proteins. By leveraging data from the Uniprot database, MoNvIso facilitates a deeper understanding of protein function and variation.
        
        [Read the documentation here.](https://alisamalb.github.io/monviso_reloaded/)
        
        ## Quick start
        
         - Download uniprot_sprot.fasta and uniprot_sprot_varsplic.fasta from UniProt.
        
         - Write a mutation.txt file with the gene name and the mutations you are interested in (e.g.,):
        ```
        GRIN1
        R       844     C
        Ala     349     Thr
        Pro     578     Arg
        Ser     688     Tyr
        Tyr     647     Ser
        
        GRIN2B
        E413G
        C436R
        M1342R
        L1424F
        PRO1439ALA
        ```
        
         - Write a parameters.dat with the calculation parameters:
        
        ```
        DB_LOCATION=./
        COBALT_HOME=./ncbi-cobalt-3.0.0/bin/
        HMMER_HOME=/usr/local/bin/  
        MODELLER_EXEC=mod10.5
        RESOLUTION=4.50
        SEQID=25
        HMM_TO_IMPORT=100
        MODEL_CUTOFF=5
        PDB_TO_USE=10
        NUM_OF_MOD_WT=1
        NUM_OF_MOD_MUT=1
        W_STRUCT=10
        W_MUT=10
        ```
        
        
        ```bash
        $ monviso_reloaded -i mutations.txt -o out/ -p parameters.dat
        ```
        
        ## Development
        
        Read the [CONTRIBUTING.md](CONTRIBUTING.md) file.
Platform: UNKNOWN
Requires-Python: >=3.9
Description-Content-Type: text/markdown
Provides-Extra: test
