Diseño de una arquitectura en pipeline para la descarga y análisis de secuencias de promotores en Solanum lycopersicum
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Se presenta el desarrollo de una arquitectura en pipeline que automatiza la descarga de
promotores de Solanum lycopersicum desde la Sol Genomics Network y luego los analiza con
el programa MEME y TOMTOM. El código está disponible en
www.github.com/lalebot/pip-prom-tom y utiliza Git como software de versionado de
software. Se combina el uso de threads en Python, expresiones regulares y base de datos
SQLite que conjuntamente disminuyen el tiempo de descarga de los promotores y optimiza la
utilización de recursos informáticos.
La presente metodología es potencialmente aplicable a otras áreas biológicas.
Design an instruction pipeline for download and analysis of promoter sequences in Solanum lycopersicum This work presents the development of an instruction pipeline that automates the download of Solanum lycopersicum promoters from the Sol Genomics Network and then analyzes them using the MEME and TOMTOM programs. The code is available at www.github.com/lalebot/pip-prom-tom and uses Git as software versioning. It combines the use of threads in Python, regular expressions and SQLite database, all of which reduce the download time of the promoters and optimize the use of computer resources. This methodology is potentially applicable to other biological areas.
Design an instruction pipeline for download and analysis of promoter sequences in Solanum lycopersicum This work presents the development of an instruction pipeline that automates the download of Solanum lycopersicum promoters from the Sol Genomics Network and then analyzes them using the MEME and TOMTOM programs. The code is available at www.github.com/lalebot/pip-prom-tom and uses Git as software versioning. It combines the use of threads in Python, regular expressions and SQLite database, all of which reduce the download time of the promoters and optimize the use of computer resources. This methodology is potentially applicable to other biological areas.