comparison i-adhore.xml @ 9:2b33a6d5211d draft

planemo upload for repository https://github.com/statonlab/docker-GRReport/tree/master/my_tools/rmarkdown_i_adhore commit a204fdb1b6f8a3859f8aefefe367b6a9deb6811d-dirty

8:f8bedb407e5c

	</inputs>
	<outputs>
		<data name="i_adhore_configure" format="html" label="i-adhore configure report" />
		<data name="i_adhore_configure_txt" format="txt" label="i-adhore configure file" />
	</outputs>
	<citations>
		<citation type="bibtex">
			@article{allaire2016rmarkdown,
			title={rmarkdown: Dynamic Documents for R, 2016},
			author={Allaire, J and Cheng, Joe and Xie, Yihui and McPherson, Jonathan and Chang, Winston and Allen, Jeff and Wickham, Hadley and Atkins, Aron and Hyndman, Rob},
			journal={R package version 0.9},

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	</inputs>
	<outputs>
		<data name="i_adhore_configure" format="html" label="i-adhore configure report" />
		<data name="i_adhore_configure_txt" format="txt" label="i-adhore configure file" />
	</outputs>
	<help>
		This tool is a wrapper of the i-ADHoRe sofeware. To use this tool, you will need to have i-ADHoRe installed.
		This tool automatically detects genomic regions with statistically significant conserved gene content and order.
		Therefore, this tool can be used for analyses within one genome (to look for paralogous regions with duplicated
		genes) or for comparisons between genomes of different organisms (to look for colinearity). The algorithm was
		especially designed to cope with micro-rearrangements (events frequently observed within different plant
		lineages), since these greatly complicate the search for colinear regions.
	</help>
	<citations>
		<citation>
			@article{proost2011adhore,
			title={i-ADHoRe 3.0—fast and sensitive detection of genomic homology in extremely large data sets},
			author={Proost, Sebastian and Fostier, Jan and De Witte, Dieter and Dhoedt, Bart and Demeester, Piet and Van de Peer, Yves and Vandepoele, Klaas},
			journal={Nucleic acids research},
			volume={40},
			number={2},
			pages={e11--e11},
			year={2011},
			publisher={Oxford University Press}
			}
		</citation>
		<citation type="bibtex">
			@article{allaire2016rmarkdown,
			title={rmarkdown: Dynamic Documents for R, 2016},
			author={Allaire, J and Cheng, Joe and Xie, Yihui and McPherson, Jonathan and Chang, Winston and Allen, Jeff and Wickham, Hadley and Atkins, Aron and Hyndman, Rob},
			journal={R package version 0.9},