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Please cite the SEX-DETector paper when using the program.

SEX-DETector is now available on the in2p3 gitlab.

The CAP3 program can be downloaded here.

The Reads2snp_2.0 program can be downloaded here.

To become familiar with the pipeline, or to test your installation, you can download some example files here (1.7 Gb). Upon installing bwa, samtools, reads2snp and SEX-DETector on your system, the script test.sh provided with the files should run the pipeline (excluding the assembly).

cap3_on_trinity_output-2.zip - 3.7 ko

Source code and galaxy wrapper for running cap3 on a trinity 2014 output file inside of trinity components.

Galaxy wrappers - 26.6 ko