Easymap

Mutant background:

Reference

Non-reference

Mapping cross performed:

Backcross

Outcross

Origin of the control reads:

Mutant parental

Polymorphic parental

F2 wild-types

Invalid combination. Easymap does not support this experimental design.

Use low stringency during SNP analysis?

By default, Easymap only considers SNPs that pass certain quality checks. However, in some read datasets that are not optimal, performing more lenient filtering can help to identify a candidate interval and the causal mutation. If you analyze your reads in the default mode and obtain very few SNPs or believe that the causal mutation could have been discarded, turn on this option and run the program again.

Experimental reads

Problem reads (if your reads are paired-end, select both files while holding the Ctrl/Cmd key):

Please select one file for single-end reads and two files for paired-end reads.

The problem and control read files must be different.

Control reads (if your reads are paired-end, select both files while holding the Ctrl/Cmd key):

Please select one file for single-end reads and two files for paired-end reads.

The problem and control read files must be different.

Simulation parameters

Mutagenesis parameters:

Recombination and selection parameters:

Contig recombination frequency distributions:

Sequencing parameters:

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