Effectidor identifies T3SS and flagella proteins in the input genome(s) based on internal datasets of the different T3SS subtypes. These proteins are excluded from the analysis of Effectidor and are reported separately.
These datasets are available for downloading:
Chlamydiales
Ysc
SPI-1
SPI-2
Hrp1
Hrp2
Rhc
Flagella

Effectidor uses a type-III effectors dataset for homology search as well as for composing the positive group if no effectors file is supplied.
The different versions of this dataset are available for downloading:

T3Es version 1.08 (August 2023) - removed False T3E - HrpA.

Older versions:
T3Es version 1.07 (July 2023) - added newly validated T3E of Ralstonia, RipBT [REF].
T3Es version 1.06 (June 2023) - added newly validated T3Es from Xanthomonas: XopBB, XopBC, XopBD, XopBE, XopBF, XopBG [REF].
T3Es version 1.05 (January 2023) - added validated T3Es from Xanthomonas, Pseudomonas syringea, Ralstonia, Acidovorax, and Panotea sp.
T3Es version 1.04 (November 2022) - added the following validated T3Es: AvrA, AvrB6, AvrBs2, AvrBs4, AvrXa3, AvrXa7, BapC, CigR, HopAF1, HopAK1, HopAO1, HopD1, HopO1-1, HopQ1-1, HopZ1, HrpE3, NopF, NopT, PopW, PopW, PthA, PthA2, PthA3, PthA4, PthB, PthC, PthG, RipAL, RipB, RipTPS, SrfJ, XAC3090, XOO3150, XopA, XopAC, XopAF, XopAG, XopAM, XopAO, XopAP, XopAR, XopAS, XopAU, XopAW, XopC, XopD, XopE1, XopE2, XopF1, XopF2, XopG, XopH, XopI, XopJ2, XopJ4, XopJ5, XopK, XopM, XopN, XopP, XopQ, XopS, XopT, XopV, XopX, XopZ, XopZ1.
T3Es version 1.03 (September 2022) - removed false T3E E2MEI8 and added missing Ralstonia T3Es and the following T3Es: XopZ2, XopJ4, XopJ2, XopE5, XopAS, XopAQ, XopAL2, XopAF, AvrXccA1.
T3Es version 1.01 (October 2021)