官网提供了三种安装方式：conda、docker和正常一步步安装，前两种较为简单，能解决较多的依赖关系，下边介绍一步步安装（https://github.com/xie186/ViewBS）
#安装htslib git clone https://github.com/samtools/htslib.git git submodule update --init --recursive autoreconf ./configure make sudo make insatll #安装ViewBS wget -c https://github.com/xie186/ViewBS/archive/refs/tags/v0.1.10.tar.gz tar -zxvf v0.1.10.tar.gz cd ViewBS-0.1.10 /opt/biosoft/ViewBS-0.1.10/ext_tools/cpanm --local-lib=~/perl5 local::lib && eval $(perl -I ~/perl5/lib/perl5/ -Mlocal::lib) /opt/biosoft/ViewBS-0.1.10/ext_tools/cpanm Getopt::Long::Subcommand /opt/biosoft/ViewBS-0.1.10/ext_tools/cpanm Getopt::Long (> 2.50) /opt/biosoft/ViewBS-0.1.10/ext_tools/cpanm --force Bio::DB::HTS::Tabix
ViewBS主要以Bismark的bismark_methylation_extractor输出结果为输入，同时根据不同的目的需要准备全基因组DNA序列的fasta文件，所有基因的bed文件，转座子bed文件，差异基因的bed文件等。
#数据准备 samtools faidx genome.fasta bgzip ../A.1_bismark_bt2_pe.deduplicated.CX_report.txt ./ #Bismark结果需要bgzip压缩 tabix -p vcf A.1_bismark_bt2_pe.deduplicated.CX_report.txt.gz #生成tbi结尾的index文件 #分析流程 ViewBS MethCoverage --reference /home/wuchangsong/gc_genome/17.Geta/0.initial_data/genome.fasta --sample A.1_bismark_bt2_pe.deduplicated.CX_report.txt.gz,Control-1 --sample B.1_bismark_bt2_pe.deduplicated.CX_report.txt.gz,Control-2 --sample C.1_bismark_bt2_pe.deduplicated.CX_report.txt.gz,Control-3 --sample D.1_bismark_bt2_pe.deduplicated.CX_report.txt.gz,Single-1 --sample E.1_bismark_bt2_pe.deduplicated.CX_report.txt.gz,Single-2 --sample F.1_bismark_bt2_pe.deduplicated.CX_report.txt.gz,Single-3 --sample G.1_bismark_bt2_pe.deduplicated.CX_report.txt.gz,Multiple-1 --sample H.1_bismark_bt2_pe.deduplicated.CX_report.txt.gz,Multiple-2 --sample I.1_bismark_bt2_pe.deduplicated.CX_report.txt.gz,Multiple-3 --outdir MethCoverage --prefix BS_seq_allsam ViewBS MethGeno --genomeLength /home/wuchangsong/gc_genome/17.Geta/0.initial_data/genome.fasta.fai --sample A.1_bismark_bt2_pe.deduplicated.CX_report.txt.gz,Control-1 --sample B.1_bismark_bt2_pe.deduplicated.CX_report.txt.gz,Control-2 --sample C.1_bismark_bt2_pe.deduplicated.CX_report.txt.gz,Control-3 --sample D.1_bismark_bt2_pe.deduplicated.CX_report.txt.gz,Single-1 --sample E.1_bismark_bt2_pe.deduplicated.CX_report.txt.gz,Single-2 --sample F.1_bismark_bt2_pe.deduplicated.CX_report.txt.gz,Single-3 --sample G.1_bismark_bt2_pe.deduplicated.CX_report.txt.gz,Multiple-1 --sample H.1_bismark_bt2_pe.deduplicated.CX_report.txt.gz,Multiple-2 --sample I.1_bismark_bt2_pe.deduplicated.CX_report.txt.gz,Multiple-3 --prefix BS_geno_sample --context CG --outdir MethGeno_100k --minLength 1000000 --win 100000 --step 100000 ViewBS MethOverRegion --region repeats.bed --sample A.1_bismark_bt2_pe.deduplicated.CX_report.txt.gz,Control-1 --sample B.1_bismark_bt2_pe.deduplicated.CX_report.txt.gz,Control-2 --sample C.1_bismark_bt2_pe.deduplicated.CX_report.txt.gz,Control-3 --sample D.1_bismark_bt2_pe.deduplicated.CX_report.txt.gz,Single-1 --sample E.1_bismark_bt2_pe.deduplicated.CX_report.txt.gz,Single-2 --sample F.1_bismark_bt2_pe.deduplicated.CX_report.txt.gz,Single-3 --sample G.1_bismark_bt2_pe.deduplicated.CX_report.txt.gz,Multiple-1 --sample H.1_bismark_bt2_pe.deduplicated.CX_report.txt.gz,Multiple-2 --sample I.1_bismark_bt2_pe.deduplicated.CX_report.txt.gz,Multiple-3 --prefix bis_gene_all_sample --context CG --outdir MethOverRegion
详细流程参考官网