Search Results for "svdetect"
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Showing 4 open source projects for "svdetect"
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svdetect.sh is a shell script to run SVDetect to detect SV in exome-seq and Shatterproof to detect chromothripsis. ***Update*** The output files of SVDetect can be annotated by genes with multi-threading.
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svdetectcnv.sh
shell script to run SVDetect with baseline adjustment
svdetectcnv.sh is a shell script to run SVDetect CNV mode. In addition to the original outputs of SVDetect, the script also outputs an adjusted bed.graph with baseline adjusted to the average Log2Ratio of a certain chromosome or all chromosomes, and a sorted density file. **Update*** New version uses the splitted bam produced by exome_test.sh and allows for multithreading to split bam. -
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contra.sh is a shell script to run contra-cnv mode. In addition to the original outputs of SVDetect, the script also outputs and bed.graph and an adjusted bed.graph with baseline adjusted to the average Log2Ratio of a certain chromosome or all chromosomes, and a sorted density file.
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A tool to identify genomic structural variations from paired-end and mate-pair sequencing data
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