| Category | Package Name | Version | Install Path |
| Editor | gedit | 3.36.1-1 | /usr/bin/gedit |
| kate | 4:19.12.3 | /usr/bin/kate | |
| vim | 2:8.1.2269 | /usr/bin/vim | |
| xed | 2.6.2 | /usr/bin/xed | |
| Email Client | thunderbird | 02:08.7 | /usr/bin/thunderbird |
| Web browser | Firefox | 75 | /usr/bin/firefox |
| Chrome | 91.0.4472.77-1 | /usr/bin/google-chrome | |
| PDF viewer | gv | 1:3.7.4-2 | /usr/bin/gv |
| okular | 4:19.12.3 | /usr/bin/okular | |
| xpdf | 3.04-7 | /usr/bin/xpdf | |
| Image viewer and processor | gimp | 2.10.24 | /usr/bin/gimp |
| Develoment Studio | rsudio-server | 1.3.1 | http://localhost:8787 |
| Office | Libreoffice | 1:6.4.3 | /usr/bin/libreoffice |
| FTP Client | gFTP | 2.0.19-6 | /usr/bin/gftp |
| FTP Server | proftp | 1.3.6 | /etc/proftpd |
| Script Language | Python2 | 2.7 | /usr/lib/python2.7 |
| Python3 | 3.8 | /usr/lib/python3.8 | |
| Perl | 5.3 | /usr/share/perl/5.30 | |
| R | 4.05 | /usr/lib/R | |
| SSH | openssh-server | 1.8.2 | /usr/bin/ssh |
| openssh-client | 1.8.2 | /usr/bin/ssh | |
| Server Monitoring | Ganglia | 3.6 | http://localhost/ganglia/ |
| dstat | 0.7.4 | /usr/bin/dstat | |
| netdata | 1.31 | http://localhost:19999/ | |
| APM(apache+php+mysql) | apache2 | 2.4.41 | /etc/apache2 |
| mysql | 8 | /etc/mysql mysql root PW : 7890uiop mysql Datadir : /BiO/LocalMysql | |
| php | 7.4 | /etc/php/7.4 | |
| PHP Module | cli | 7.4 | /etc/php/7.4 |
| common | 7.4 | /etc/php/7.4 | |
| curl | 7.4 | /etc/php/7.4 | |
| gd | 7.4 | /etc/php/7.4 | |
| intl | 7.4 | /etc/php/7.4 | |
| json | 7.4 | /etc/php/7.4 | |
| ldap | 7.4 | /etc/php/7.4 | |
| mbstring | 7.4 | /etc/php/7.4 | |
| mysql | 7.4 | /etc/php/7.4 | |
| opcache | 7.4 | /etc/php/7.4 | |
| pspell | 7.4 | /etc/php/7.4 | |
| readline | 7.4 | /etc/php/7.4 | |
| xml | 7.4 | /etc/php/7.4 | |
| xmlrpc | 7.4 | /etc/php/7.4 | |
| Wiki | Biowiki | 3 | http://localhost /BiO/Serve/Httpd/Biowiki-3.0 |
| Language Pack | English | ||
| Korean | |||
| System Tools | mlocate | 0.26 | /usr/bin/locate |
| iozone | 3 | /usr/bin/iozone | |
| iso file usb generator | woeusb | /usr/local/bin/woeusb | |
| Raid Management Tool | MSM | 12 | /usr/local/MSM |
| Cluster scheduler Engine | Sun Grid Engine | 8.1.9 | /var/lib/gridengine |
| Desktop Enviroment | Mate | 20.04.2 | |
| Cinnamon | 4.4.0 | ||
| Genome Analysis Tools | ncbi-blast | 2.9 | /usr/bin/blastn, blastp, blastx |
| tophat | 2.1.1 | /usr/bin/tophat | |
| bwa | 0.7.17 | /usr/bin/bwa | |
| samtools | 1.1 | /usr/bin/samtools | |
| bismark_v0.8.3 | 0.8.3 | /BiO/Install/bismark_v0.8.3 | |
| CAP3 | 12/21/07 | /BiO/Install/CAP3 | |
| clustalw-2.1 | 2.1 | /BiO/Install/clustalw-2.1 | |
| clustalx-2.1 | 2.1 | /BiO/Install/clustalx-2.1 | |
| Cluster_1.50 | 1.5 | /BiO/Install/Cluster_1.50 | |
| cnD | 03/29/07 | /BiO/Install/cnD | |
| cutadapt-1.4.1 | 1.4.1 | /BiO/Install/cutadapt-1.4.1 | |
| ea-utils-master | /BiO/Install/ea-utils-master | ||
| exonerate-2.2.0-x86_64 | 2.2 | /BiO/Install/exonerate-2.2.0-x86_64 | |
| fasta-36.3.6b | 36.3.6b | /BiO/Install/fasta-36.3.6b | |
| FastQC_0.10.1 | 0.10.1 | /BiO/Install/FastQC_0.10.1 | |
| FastUniq | /BiO/Install/FastUniq | ||
| Fastx-toolkit_0.0.13 | 0.0.13 | /BiO/Install/Fastx-toolkit_0.0.13 | |
| GapCloser-src-v1.12-r6 | 1.12 | /BiO/Install//GapCloser-src-v1.12-r6 | |
| gatk-4.1.9.0 | 4.1.9 | /BiO/Install/gatk-4.1.9.0 | |
| GenomeAnalysisTK-2.7-2 | 2.7-2 | /BiO/Install/GenomeAnalysisTK-2.7-2 | |
| GenomeAnalysisTK-3.7 | 3.7 | /BiO/Install/GenomeAnalysisTK-3.7 | |
| genscan | /BiO/Install/genscan | ||
| IGVTools | 2.3.14 | /BiO/Install/IGVTools | |
| lobstr_2.0.2 | 2.0.2 | /BiO/Install/lobstr_2.0.2 | |
| mirdeep2 | 2 | /BiO/Install/mirdeep2 | |
| miRDP1.3 | 1.3 | /BiO/Install/miRDP1.3 | |
| multiz-tba | /BiO/Install/multiz-tba | ||
| polyphen-2.2.2 | 2.2.2 | /BiO/Install/polyphen-2.2.2 | |
| prinseq-lite-0.20.4 | 0.20.4 | /BiO/Install/prinseq-lite-0.20.4 | |
| RNAcode_0.3 | 0.3 | /BiO/Install/RNAcode_0.3 | |
| rseq-0.1.1-src | 0.1.1 | /BiO/Install/rseq-0.1.1-src | |
| sambamba | 0.51 | /BiO/Install/sambamba | |
| seqtk-master | 1 | /BiO/Install/seqtk-master | |
| sickle-master | 1 | /BiO/Install/sickle-master | |
| snpEff | 3.3 | /BiO/Install/snpEff | |
| SNVMix2-0.11.8-r3 | 2-0.11.8-r3 | /BiO/Install/SNVMix2-0.11.8-r3 | |
| soap2.21release | 2.21 | /BiO/Install/soap2.21release | |
| SOAPdenovo2-src-r240 | r240 | /BiO/Install/SOAPdenovo2-src-r240 | |
| SOAPec_v2.01 | 2.01 | /BiO/Install/SOAPec_v2.01 | |
| SOAPfilter_v2.0 | 2 | /BiO/Install/SOAPfilter_v2.0 | |
| trimmomatic | 0.36 | /BiO/Install/trimmomatic | |
| Somatic-sniper | 1.0.5 | /BiO/Install/somatic-sniper/build/bin/bam-somaticsniper | |
| Pindel | 0.25 | /BiO/Install/pindel | |
| sambamba | 0.8.0 | /BiO/Install/sambamba/sambamba-0.8.0 | |
| Varscan | 2.3.9 | java -jar /BiO/Install/VarScan/VarScan.v2.3.9.jar | |
| CNVnator | 0.4.1 | /BiO/Install/CNVnator | |
| BIOBAMBAM2 | 2.0.54 | /BiO/Install/biobambam2/bin | |
| PICARD | 2.25.5 | /BiO/Install/Picard_2.25.5 | |
| MuTect2 | 2 | /BiO/Install/gatk-4.1.9.0/gatk Mutect2 | |
| MuSE | 1.0rc | /BiO/Install/MuSEv1.0/MuSEv1.0rc | |
| Control-FFREC | 11.6 | (/BiO/Install/FREEC-11.6, freec | |
| Circos | 0.69-8 | /usr/bin/circos | |
| STAR | 2.4.2a | /BiO/Install/STAR/bin/Linux_x86_64//STAR | |
| HTSeq | 0.13 | /usr/local/bin/htseq-qa | |
| gistic2 | 2 | /BiO/Install/gistic2/gistic2 | |
| bioperl | 1.7.8 | /BiO/Install/bioperl-live | |
| Genomon | 2.6.3 | /BiO/Install/GenomonPipeline | |
| Data install : install_data.sh Test Run : dna_run.sh / rna_run.sh | |||
| Perl Library | Bio::Tools::Run::RemoteBlast | ||
| Bio::SeqIO::interpro | |||
| Bio::SearchIO::hmmer | |||
| Bio::EUtilities | |||
| Bio::DB::Taxonomy::sqlite | |||
| Bio::FeatureIO | |||
| Bio::DB::SeqFeature | |||
| Bio::DB::GFF | |||
| Bio::Variation | |||
| Bio::DB::RefSeq | |||
| Bio::DB::SwissProt | |||
| Bio::Procedural | |||
| Bio::DB::HIV | |||
| Bio::Restriction | |||
| Bio::DB::EMBL | |||
| Bio::DB::BioFetch | |||
| Bio::Symbol | |||
| Bio::Tools::Run::Bowtie | |||
| Bio::Tools::Run::Maq | |||
| Bio::Tools::Run::TigrAssembler | |||
| Bio::Tools::Run::Newbler | |||
| Bio::Tools::Run::Minimo | |||
| Bio::Tools::Run::Phrap | |||
| XML::Dumper | |||
| XML::Grove | |||
| XML::LibXML | |||
| XML::NamespaceSupport | |||
| XML::Parser | |||
| XML::SAX | |||
| XML::Simple | |||
| XML::Twig | |||
| Statistics::Descriptive | |||
| Math::CDF | |||
| Config::General | |||
| Font::TTF | |||
| GD | |||
| List::MoreUtils | |||
| Math::Bezier | |||
| Math::Round | |||
| Math::VecStat | |||
| Params::Validate | |||
| Regexp::Common | |||
| Set::IntSpan | |||
| Text::Format | |||
| GD::Graph::bars | |||
| PerlIO::gzip | |||
| LWP::Simple | |||
| DBD::SQLite | |||
| Bio::DB::Sam | |||
| Readonly | |||
| Statistics::R | |||
| R | |||
| Astro::FITS::CFITSIO | |||
| Astro::FITS::Header | |||
| Bio::SamTools | |||
| BioPerl | |||
| Compress::Raw::Bzip2 | |||
| Compress::Raw::Zlib | |||
| Date::Manip | |||
| Devel::Symdump | |||
| Digest::MD5 | |||
| Encode | |||
| Encode::Locale | |||
| ExtUtils::MakeMaker | |||
| File::Listing | |||
| Getopt::Long | |||
| Graph | |||
| HTTP::Cookies | |||
| HTML::Parser | |||
| HTML::Template | |||
| HTTP::Daemon | |||
| HTTP::Date | |||
| HTTP::Message | |||
| HTTP::Negotiate | |||
| IO::Compress | |||
| IO::HTML | |||
| Inline | |||
| IPC::Run | |||
| LWP::MediaTypes | |||
| List::Vectorize | |||
| Math::CDF | |||
| Net::HTTP | |||
| Number::Bytes::Human | |||
| ONTO::PERL | |||
| PDL | |||
| Parse::RecDescent | |||
| PathTools | |||
| Pod::Coverage | |||
| Pod::Escapes | |||
| Pod::Parser | |||
| Pod::Simple | |||
| Regexp | |||
| Regexp::Common | |||
| Starlink::AST | |||
| Statistics::Descriptive | |||
| Statistics::Multtest | |||
| Statistics::R | |||
| Sub::Uplevel | |||
| Test::Inter | |||
| Test::Pod | |||
| Test::Pod::Coverage | |||
| Test::Simple | |||
| Test::Warn | |||
| Tie::Array::PackedC | |||
| Tree::Trie | |||
| Tree::DAG_Node | |||
| URI | |||
| WWW::RobotRules | |||
| YAML::Syck | |||
| kyotocabinet::perl | |||
| libwww::perl | |||
| Attribute::Handlers | |||
| Config::General | |||
| DBD::SQLite | |||
| DBI | |||
| ExtUtils::MakeMaker | |||
| ExtUtils::CBuilder | |||
| GD | |||
| Math::Bezier | |||
| Math::BigInt | |||
| Math::Complex | |||
| Math::Round | |||
| Math::VecStat | |||
| Params::Validate | |||
| Perl::OSType | |||
| Set::IntSpan | |||
| Statistics::Lite | |||
| R Library | annotate | ||
| AnnotationDbi | |||
| askpass | |||
| BH | |||
| Biobase | |||
| BiocGenerics | |||
| BiocManager | |||
| BiocParallel | |||
| BiocVersion | |||
| bit | |||
| bit64 | |||
| bitops | |||
| blob | |||
| cachem | |||
| cli | |||
| clipr | |||
| colorspace | |||
| copynumber | |||
| cpp11 | |||
| crayon | |||
| curl | |||
| DBI | |||
| DelayedArray | |||
| DESeq2 | |||
| digest | |||
| ellipsis | |||
| fansi | |||
| farver | |||
| fastmap | |||
| formatR | |||
| futile.logger | |||
| futile.options | |||
| genefilter | |||
| geneplotter | |||
| GenomeInfoDb | |||
| GenomeInfoDbData | |||
| GenomicRanges | |||
| ggplot2 | |||
| glue | |||
| gtable | |||
| hms | |||
| httr | |||
| iotools | |||
| IRanges | |||
| isoband | |||
| jsonlite | |||
| labeling | |||
| lambda.r | |||
| lifecycle | |||
| locfit | |||
| magrittr | |||
| MatrixGenerics | |||
| matrixStats | |||
| memoise | |||
| mime | |||
| munsell | |||
| openssl | |||
| pbapply | |||
| pillar | |||
| pkgconfig | |||
| plogr | |||
| R6 | |||
| RColorBrewer | |||
| Rcpp | |||
| RcppArmadillo | |||
| RCurl | |||
| readr | |||
| rlang | |||
| RSQLite | |||
| S4Vectors | |||
| scales | |||
| seqminer | |||
| sequenza | |||
| snow | |||
| squash | |||
| SummarizedExperiment | |||
| sys | |||
| tibble | |||
| utf8 | |||
| vctrs | |||
| viridisLite | |||
| withr | |||
| XML | |||
| xtable | |||
| XVector | |||
| zlibbioc | |||
| Python library | annot_utils | ||
| atom | |||
| backports | |||
| bamfilter | |||
| bfillings | |||
| biom_format | |||
| builtins | |||
| burrito | |||
| burrito_fillings | |||
| chimera_utils | |||
| cogent | |||
| copyreg | |||
| cutadapt | |||
| cycler | |||
| Cython | |||
| dateutil | |||
| decorator | |||
| drmaa | |||
| ebfilter | |||
| emperor | |||
| enum | |||
| fisher | |||
| fusionfusion | |||
| fusion_utils | |||
| future | |||
| gdata | |||
| genomon_expression | |||
| genomon_fisher | |||
| genomon_mutation_filter | |||
| genomon_pipeline | |||
| genomon_post_analysis | |||
| genomon_qc | |||
| genomon_sv | |||
| h5py | |||
| hotspotCall | |||
| html | |||
| http | |||
| intron_retention_utils | |||
| IPython | |||
| ipython_genutils | |||
| kiwisolver | |||
| libfuturize | |||
| libpasteurize | |||
| matplotlib | |||
| mpl_toolkits | |||
| mutanno | |||
| mutation_util | |||
| mutfilter | |||
| mutil | |||
| natsort | |||
| numpy | |||
| pandas | |||
| paplot | |||
| past | |||
| pathlib2 | |||
| pexpect | |||
| pickleshare | |||
| pip | |||
| pkg_resources | |||
| prompt_toolkit | |||
| ptyprocess | |||
| pygments | |||
| pynast | |||
| pyparsing | |||
| pyqi | |||
| pysam | |||
| python_dateutil | |||
| pytz | |||
| pyximport | |||
| PyYAML | |||
| qcli | |||
| qiime | |||
| qiime_default_reference | |||
| qiime_test_data | |||
| queue | |||
| reprlib | |||
| ruffus | |||
| scandir | |||
| scikit | |||
| scipy | |||
| setuptools | |||
| shutil_backports | |||
| simplegeneric | |||
| six | |||
| skbio | |||
| socketserver | |||
| subprocess32 | |||
| sv_utils | |||
| tkinter | |||
| traitlets | |||
| wcwidth | |||
| wheel | |||
| winreg | |||
| xmlrpc | |||
| yaml |
BioOS programs installed by default
문서
역사
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