Experiment Experiment running example: (Picky) theLAST/bin/lastdb -v -P 1 hg19.lastdb hg19.fa samtools dict -H hg19.fa > hg19.seq.dict picky/Picky-0.2.a/src/picky.pl script --fastq LongRead.fastq --thread 1 > run.sh Let “theLAST/bin/lastal”, “picky/Picky-0.2.a/src/picky.pl”, “/refGenome/hg19.lastdb” and “/refGenome/hg19.fa” in “export LASTAL=”，“export PICKY=”，“export LASTALDB=” and “export LASTALDBFASTA=”. (NanoSV) bedtools bamtobed -i sor.bam > sor.bed /svim_env/bin/NanoSV -t 1 -s /theSAMBAMBA/bin/sambamba -b sor.bed -o sor.vcf sor.bam (pbsv) /thePBMM2/bin/pbmm2 align /refGenome/hg19.fa movie1.Q20.fastq ref.movie1.bam --sort --sample sample1 --rg '@RG\tID:movie1' or /thePBMM2/bin/pbmm2 align /refGenome/hg19.fa movie1.Q20.fastq ref.movie1.bam --sort --preset CCS --sample sample1 --rg '@RG\tID:movie1' /thePBSV/bin/pbsv discover ref.movie1.bam ref.sample1.svsig.gz /thePBSV/bin/pbsv call /refGenome/hg19.fa ref.sample1.svsig.gz ref.var.vcf （sniffles） /theNGMLR/bin/ngmlr -t 1 -r /refGenome/hg19.fa -q sor.fastq -o sor.sam or bwa mem -M -t 1 /refGenome/hg19.fa sor.fastq > sor.sam samtools view -bS sor.sam > sor.bam samtools sort sor.bam > sort_sor.bam samtools index sort_sor.bam /theSNIFFLES/bin/sniffles -m sort_sor.bam -v output.vcf (cutesv) /theCUTESV/bin/cuteSV sort_sor.bam /refGenome/hg19.fa sor.vcf /theCUTESV/testData/
Recommendation Installation-free mode, copy the code directly and run the following command. Recommendation running example: python newSampleRecommend.py -f sample.fq Then, the recommendation results will be printed in the console.