4. CreateSequenceDictionary:用于创建序列字典文件。 ```bash java -jar picard.jar CreateSequenceDictionary \ R=reference.fasta \ O=reference.dict ``` 5. CollectAlignmentSummaryMetrics:用于收集对齐汇总统计信息。 ```bash java -jar picard.jar CollectAlignmentSummaryMetrics \ R=reference.fasta \ I=inp...
1、方式1 root@DESKTOP-1N42TVH:/home/test/test2# ls Arabidopsis_thaliana.TAIR10.dna.toplevel.fa root@DESKTOP-1N42TVH:/home/test/test2#java -jar /home/software/picard/build/libs/picard.jar CreateSequenceDictionary R=Arabidopsis_thaliana.TAIR10.dna.toplevel.fa O=Arabidopsis_thaliana.TAIR10.dna...
picard CreateSequenceDictionary R=LH9.fasta &> picardindex.log & picard报错: Exception in thread "main" java.lang.UnsupportedClassVersionError: picard/cmdline/PicardCommandLine : Unsupported major.minorversion 52.0 at java.lang.ClassLoader.defineClass1(Native Method) at java.lang.ClassLoader.defineCl...
[Fri Oct 13 10:13:20 CST 2023] CreateSequenceDictionary --OUTPUT Bromus_tectorum.dict --REFERENCE Bromus_tectorum.faa --TRUNCATE_NAMES_AT_WHITESPACE true --NUM_SEQUENCES 2147483647 --VERBOSITY INFO --QUIET false --VALIDATION_STRINGENCY STRICT --COMPRESSION_LEVEL 5 --MAX_RECORDS_IN_RAM 500000 ...
java-jar/home/public/software/miniconda2/share/picard-2.26.2-0/picard.jar CreateSequenceDictionary-Rmm10.fa-Omm10.dict###比对结果文件预处理在用STAR的2-pass mode比对时,由于考虑到后续还要给bam文件添加RG标签(GATK要求的),所以就没有在比对输出时就对其先排序,反正用picard在添加RG标签时也能顺便排序:...
UpdateVcfSequenceDictionary VcfFormatConverter MarkIlluminaAdapters SplitVcfs ValidateSamFile ViewSam VcfToIntervalList 一、安装 安装:http://broadinstitute.github.io/picard/ cd /data/software/ wget -c https://github.com/broadinstitute/picard/releases/download/2.27.1/picard.jar ...
PICARD-2011 - "RuntimeError: dictionary changed size during iteration" in metadatabox PICARD-2685 - Moving files between tracks looses AcoustID fingerprint and ReplayGain tags PICARD-2689 - If the first dragged element is not visible an empty rectangle is shown during drag Improvements PICARD-2680...
We read every piece of feedback, and take your input very seriously. Include my email address so I can be contacted Cancel Submit feedback Saved searches Use saved searches to filter your results more quickly Cancel Create saved search Sign in Sign up Reseting focus {...
net.sf.picard.sam.CreateSequenceDictionary.class net.sf.picard.sam.DiskReadEndsMap.class net.sf.picard.sam.DownsampleSam.class net.sf.picard.sam.DuplicationMetrics.class net.sf.picard.sam.EarliestFragmentPrimaryAlignmentSelectionStrategy.class net.sf.picard.sam.EstimateLibraryComplexity.class net.sf....
java -jar $picard CreateSequenceDictionary R=ref.fa O=chlorandrum.dict java -jar $picard ReorderSam I=test_reads.sam O=test_reads.reordered.sam R=ref.fa 3.sam文件转化成bam文件 samtools view -bs test_reads.reordered.sam -o test.bam ...