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 sample -p 0.1 \ | seqkit head -n 1000 -o sample.fa.gz # 设置随机种子,方便重复结果: -s 11 zcat hairpin.fa.gz \ | seqkit sample -p 0.1 -s 11 |head # 抽样后打乱序列 :seqkit shuffle zcat hairpin.fa.gz \ | seqkit sample -p 0.1 \ | seqkit shuffle -o sample.fa.gz r...
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...
Subcommands sample and shuffle use random function, random seed could be given by flag -s (--rand-seed). This makes sure that sampling result could be reproduced in different environments with same random seed. Usage && Examples Usage and examples Tutorial Benchmark More details: http://bioin...
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
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...
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:/...
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 ...