Drawing a schematic genomic context tree.
Usage: biostar95652 [options] Files
Options:
-h, --help
print help and exit
--helpFormat
What kind of help. One of [usage,markdown,xml].
--ncbi-api-key
NCBI API Key see https://ncbiinsights.ncbi.nlm.nih.gov/2017/11/02/new-api-keys-for-the-e-utilities/
.If undefined, it will try to get in that order: 1) environment
variable ${NCBI_API_KEY} ; 2) the jvm property "ncbi.api.key" ; 3) A
java property file ${HOME}/.ncbi.properties and key api_key
-o, --output
Output file. Optional . Default: stdout
--version
print version and exit
${PATH}
. Setting JAVA_HOME is not enough : (e.g: https://github.com/lindenb/jvarkit/issues/23 )$ git clone "https://github.com/lindenb/jvarkit.git"
$ cd jvarkit
$ ./gradlew biostar95652
The java jar file will be installed in the dist
directory.
The project is licensed under the MIT license.
Should you cite biostar95652 ? https://github.com/mr-c/shouldacite/blob/master/should-I-cite-this-software.md
The current reference is:
http://dx.doi.org/10.6084/m9.figshare.1425030
Lindenbaum, Pierre (2015): JVarkit: java-based utilities for Bioinformatics. figshare. http://dx.doi.org/10.6084/m9.figshare.1425030
$ java -jar dist/biostar95652.jar \
NP_077719.2 \
XP_513697.3 XP_001114248.1 \
XP_540266.3 XP_002686160.2 \
NP_035058.2 NP_077334.1 \
NP_001238962.1 NP_001108566.1 > result.svg
Result: