Difference between revisions of "Kevinmcgee Week 15"
From LMU BioDB 2013
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=Uploading Into GenMAPP= | =Uploading Into GenMAPP= | ||
| − | + | ==Datasheet== | |
| − | =Sanity Check= | + | #compiled all data onto a single data sheet including both L.Major and L.Infantum and uploaded into GenMAPP |
| − | ==Leishmania Infantum== | + | #*Ran into some problems uploading (almost everything was an error) |
| + | #Filtered out any Lin genes and created a new datasheet for only LmfJ genes. | ||
| + | #*Still ran into problems uploading | ||
| + | #looked at the database OrthologicalNames sheet, and saw that the GeneID's were in a different format on there then in the spreadsheet. | ||
| + | #*Made a quick-fix file by changing the names on the spreadsheet, but longterm fixes are being made to the coding so that other users do not have to change the names on their spreadsheets every time (for convenience). | ||
| + | #Were able to upload our data and continue on with the project. | ||
| + | ==Sanity Check== | ||
| + | ===Leishmania Infantum=== | ||
#Filtered P-value | #Filtered P-value | ||
#*1392 genes were <.05 | #*1392 genes were <.05 | ||
| Line 13: | Line 20: | ||
#*699 genes were >.25 while 646 were <.05 | #*699 genes were >.25 while 646 were <.05 | ||
#*748 genes were >.05 while 606 were <.-25 | #*748 genes were >.05 while 606 were <.-25 | ||
| + | |||
| + | ==GenMAPP Finder Color Changes== | ||
Revision as of 18:28, 5 December 2013
Contents |
Uploading Into GenMAPP
Datasheet
- compiled all data onto a single data sheet including both L.Major and L.Infantum and uploaded into GenMAPP
- Ran into some problems uploading (almost everything was an error)
- Filtered out any Lin genes and created a new datasheet for only LmfJ genes.
- Still ran into problems uploading
- looked at the database OrthologicalNames sheet, and saw that the GeneID's were in a different format on there then in the spreadsheet.
- Made a quick-fix file by changing the names on the spreadsheet, but longterm fixes are being made to the coding so that other users do not have to change the names on their spreadsheets every time (for convenience).
- Were able to upload our data and continue on with the project.
Sanity Check
Leishmania Infantum
- Filtered P-value
- 1392 genes were <.05
- 327 genes were <.01
- 67 genes were <.001
- 28 genes were >.0001
- Filtered Average Log Fold Change
- 748 genes were >0
- 646 genes were <0
- 699 genes were >.25 while 646 were <.05
- 748 genes were >.05 while 606 were <.-25
