seqtk subseq -l 40 B1_NR100nl.fasta name.list > out.fa 5.随机抽取序列,按照比例或者数量 -s设定随机种子,便于重复 seqtk sample -s 10 test.fq 0.4 #比例seqtk sample -s 10 test.fq 100 #数量 6.重命名 会将序列id变为从1到n... seqtk rename in.fa <前缀> > out.fa 7..fastq转换为fast...
seqkit common test.fa test2.fa -s -i -o common.fasta7)提取部分序列如随机抽取10000条FASTQ序列做NT污染评估。同时他也可以对FASTA序列提取seqkit sample [flags]参数:-n, --number int sample by number#按数量-p, --proportion float sample by proportion##按比例-s, --rand-seed int rand seed ...
当我们序列条数过多,全部用于实验会让代码速度减慢,所以有时我们会将序列抽样 从上图理解,格式是seqtk sample in.fa 分数|具体数字,也就是说我们可以抽取多少含量,也可以抽具体数字. seqtk sample atha.fasta 2 如果我们不改变随机种子,那么每次随机都会是一样的结果. -s 改变随...
seqkit sample [flags] 参数: -n, --number int sample by number (result may not exactly match) -p, --proportion float sample by proportion -s, --rand-seed int rand seed for shuffle (default 11) -2, --two-pass 2-pass mode lower memory ...
集合操作：如head打印首行，sample抽样，rmdup去除重复序列等。 编辑和排序：replace修改序列，rename重命名，sort进行序列排序。 具体用法：通过添加环境变量调用，如`export PATH=path:$PATH`，并参照各种命令的参数选项进行操作，例如`seqkit seq -w 100 test.fa`以100碱基为行输出序列。例如，对文...
One FASTQ file (sample reads, 1M) and two FASTA files (Virus DNA and protein sequences from NCBI RefSeq database, 60+40M) are used.wget http://data.biostarhandbook.com/reads/duplicated-reads.fq.gz wget ftp://ftp.ncbi.nih.gov/refseq/release/viral/viral.1.1.genomic.fna.gz wget ftp:/...
samplesample sequences by number or proportion headprint first N FASTA/Q records Edit replacereplace name/sequence by regular expression renamerename duplicated IDs Ordering shuffleshuffle sequences sortsort sequences by id/name/sequence Misc
sample 按数量或比例对序列进行抽样 sana 清理损坏的单行fastq文件 scat real time recursive concatenation and streaming of fastx files seq 转换序列(反向,补充,提取ID…) shuffle 随机序列 sliding 序列滑窗提取,支持环形基因组 sort 按id/名称/序列/长度排序序列 ...
seqkit analysis align -p Ascl1_US --bam_to_bed -s Mark_Mash1_s4 seqkit analysis align -p Ascl1_US --bam_to_bed -s Mark_input_s3 Inputs ParametersExpected InputExplanation -p/--projectFILENAMEPath to the project folder -s/--sampleFILENAME(optional)to run on specific samples inside ...
seqkit split2: fix redundant log when using -s. seqkit bam: new field RightSoftClipSeq. #172 seqkit sample -2: remove extra \n. #173 seqkit split2 -l: fix bug for splitting by accumulative length, this bug occurs when the first record is longer than -l, no sequences are lost.SeqK...