The EDF is typically a text file or Excel spread sheet and must be created before the data can be imported. Īn Experimental Design File (EDF) that indexes the individual raw data files for the experiment.What do I need?īefore you can successfully import the raw data into SAS data sets that can be used for analysis in JMP Genomics, you must locate and gather several sources of information: You must then download SAMtools version 0.1.12 (for Windows) from and save the executable files in the newly created NextGen folder. Important: Before running this process, you must navigate to the C:\Program Files\SASHome\JMPGenomics\13\Genomics\ThirdPartyAnnotation\ folder and create a new folder and name it NextGen. This process supports both paired-end and single-end reads. The total number of reads are reduced through binning, and read count is calculated. ![]() bam) files and combines them into three SAS data sets containing chromosome, location, and sequence identity of each sample with a reference sequence. ![]() The BAM Input Engine imports a set of Compressed Binary Sequence Alignment Map (.
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