samtools view -bhS -t GCA_000012525.1_ASM1252v1_genomic.fna.fai -o PCC7942_bwa.bam PCC7942_bwa.sam #(最后这个sam文件用自己目录的sam文件名) 3.png (改为samtools view -bhS -t GCA_000012525.1_ASM1252v1_genomic.fna.fai -o PCC7942_bwa.bam test _bwa_P7942_bwa.sam) 查看less PCC7942_bw...
samtools view ‐bhS -t ref_list.txt ‐o aln.bam aln.sam samtools sort aln.bam aln.sorted samtools index aln.sorted.bam 【samtools view aln.sorted.bam chr2:20,100,000‐20,200,000 samtools merge out.bam in1.bam in2.bam in3.bam samtools faidx ref.fasta samtools pileup ‐f ref.fasta...
samtools tview aln.sorted.bam ref.fasta】 描述: Samtools是一系列处理BAM格式序列的应用。它从SAM(Sequence Alignment/Map)格式输入或者输出为SAM格式,可以进行排序,合并和建立索引,并且允许快速地检索任意区域的读段(reads)。 命令和选项: 1)samtoolsview [‐bhuHS] [‐t in.refList] [‐o output] [‐f ...
$sCmd = $phOptions->{'samtools_bin_dir'}."/samtools view -bhS";$sCmd .= " ".$phOptions->{'samtools_view_options'} if (defined $phOptions->{'samtools_view_options'});$sCmd .= " -t ".$phOptions->{'reffile'}.".fai"
samtools view -bhS -t GCA_000012525.1_ASM1252v1_genomic.fna.fai -o PCC7942_bwa.bam test_bwa_7942.sam #(最后这个sam文件用大家自己目录的sam文件名)less PCC7942_bwa.bam #为bam文件排序,sort只能为bam文件排序,而不能为sam;不同版本samtools sort命令的-o参数不同 ...
samtools view -bhS -t GCA_000012525.1_ASM1252v1_genomic.fna.fai -o PCC7942_bwa.bam PCC7942_bwa.sam #(最后这个sam文件用大家自己目录的sam文件名) less PCC7942_bwa.bam 为bam文件排序,sort只能为bam文件排序,而不能为sam;不同版本samtools sort命令的-o参数不同 ...
samtools view ‐bhS -t ref_list.txt ‐o aln.bam aln.sam samtools sort aln.bam aln.sorted samtools index aln.sorted.bam 【samtools view aln.sorted.bam chr2:20,100,000‐20,200,000 samtools merge out.bam in1.bam in2.bam in3.bam ...