GGDB site instructions

Dolplot

Dolplot Modular Function:Dolplot contains dot map and Ks distribution information between two species.

  1. Dolplot
    Select reference species and comparative species, and wait a few minutes to get the desired result.
Lists

Lists Modular Function:GGDB Lists contains colinear information of Gramineae species, which is divided into two modules: Colineartiy and Colineartiy D.

  1. Colineartiy
    Select reference species and comparative species, and wait a few minutes to get the desired result. Colineartiy module information is not involved in the cWGD incident.

  2. Colineartiy D
    Select reference species and comparative species, and wait a few minutes to get the desired result. Colineartiy module information involves cWGD events.
Pairwise Colineraity

Pairwise Colineraity Modular Function:Pairwise Colineraity can draw collinear maps between two species online, including two modules at chromosome level and gene level.

  1. Chromosome Level
    Select the reference species and the comparative species, and submit the chromosome number of the species to be compared, and wait a few minutes to get the desired result. Colineartiy is not involved in the cWGD incident.

  2. Gene Level
    Select the reference species and compare species, and submit the genetic ID file to be mapped by the reference species, and wait a few minutes to get the desired result. Gene ID files can be obtained from the List module.

Multi-Alignment

Multi-Alignment Modular Function: Multi-Alignment module can draw a joint map of multi-genomes, which is divided into two modules: Colinearity Atlas and Colinearity Atlas D.

  1. Colinearity Atlas
    Select reference species and comparative species, and wait a few minutes to get the desired result. Colineartiy module information is not involved in the cWGD incident.
  2. Colinearity Atlas D
    Select reference species and comparative species, and wait a few minutes to get the desired result. Colineartiy module information is involved in the cWGD incident.


Local Colineraity

Local Colineraity Modular Function:The module can draw the local joint alignment map of multi-genomes, which is divided into two modules: Colinearity and Colineartiy D.

  1. Colinearity
    Select the reference species and compare species, submit the genetic ID file to be mapped by the reference species, and wait a few minutes to get the desired result. Colineartiy module information is not involved in the cWGD incident. Gene ID files can be obtained from the List module.
  2. Colinearity D
    Select the reference species and compare species, submit the genetic ID file to be mapped by the reference species, and wait a few minutes to get the desired result. Colineartiy module information is involved in the cWGD incident. Gene ID files can be obtained from the List D module.


Trees

Trees Modular Function:Trees module can draw a single gene collinear evolution tree, including the real evolution rate evolution tree and the corrected gene evolution tree.

  1. Actual Gene Tree
    Select the reference species and compare species, submit the genetic ID file to be mapped by the reference species, and wait a few minutes to get the desired result. Colineartiy module information is involved in the cWGD incident. Gene ID files can be obtained from the List D module.
  2. Ideal gene tree