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Carlos-Francisco Méndez-Cruz
/
automatic-extraction-growth-conditions
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Authored by
Kevin Meza Landeros
2019-07-24 11:46:21 -0500
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@@ -19,7 +19,7 @@ Thats why, our hypothesis is that a predictive model can determine the GCs of th
## Metodolgy
1.
GEO files download
1.
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*GEO files download*__
GEO files from all Entero bacteria were downloaded to a server and ordered in 4 directorie (all of them with lots of _GSE00000000_ folders):
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Binding_exp
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Binding_HT
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@@ -27,12 +27,12 @@ Thats why, our hypothesis is that a predictive model can determine the GCs of th
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Function_HT
Each of the _GSE00000000_ folders contains a compresed file (GSE00000_family.soft.gz) that must be extracted.
2.
- Obtaining SOFT files and its transformation to an XML format
2.
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*Obtaining SOFT files and its transformation to an XML format*__
An script goes trhough every _GSE00000000_ folder an unzips _"GSE00000_family.soft.gz"_ files, in order to obain _"GSE00000_family.soft"_ files.
These last are all saved in another directory, keeping the structure of the 4 father directories.
Then another script transforms SOFT files into XML files.
3.
Tagging the GC within the XML files
3.
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*Tagging the GC within the XML files*__
## Prerequisites
### Programming languages
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