Genoomes改变日志04/12/18-添加新基因组Sscrofa11.102/27/17-添加新基因组G加路斯UCSCGAL503/03/16-Mitochondrial染色体名mys,ensembl,AGPv2Zmys,ensembl,AGPv3Dmelangoaster,Ensembl,BDGP5.25melangoaster,Ensembl,BDGP5Dmelangoaster,Ensembl,BDGP6SCerevisiee编集EF2SCerevisiee编集EF3SCerevisiee编集EF4SCerevisiee,Ensembl,R64-1-1112/15-添加缺失chr29图鲁斯UCSCBSTOU6B图鲁斯UCSCBSTOU7Bturuss,UCSC,BosTau808/26/15-更新基因组Size.xmlspeens,NCBI,GRCH38Hsapiens,NCBI,GRCh38Decoy08/18/15-添加以下新构建speens,NCBI,GRCH38Hsapiens,NCBI,GRCh38Decoysapienss,UCSC,hg3807/28/15-添加以下新构建turus,NBIUM_3.1.B图鲁斯UCSCBOSTOO8Dmelangoaster,Ensembl,BDGP6Dm6Drerio,ensembl,GRCz10DrerioNCBIGRCZ10DrerioUCSCDANRER10R诺维吉库斯市Rnor_6.0RNorvegicus国家中心局Rnor_6.0RNorvegicus,UCSC,rn6 07/28/15-固定相联Genes和SmallRNAmys,ensembl,AGPv3Osativajopnica,Ensembl,IRGSP-1.0SCerevisiae,Ensembl,R64-111Celegans,Ensembl,WBCEL235Ggallus,ensembl,Galgal4 07/24/15-更新所有iGenomes基因注解05/21/15-H添加snp142.vcfspeenss,UCSC,hg1903/13/15-向人添加dbsnp142,UCSC,hg1912/05/14-向人添加Mecation网站列表,NCBI,building36.3和building37.106/10/14-更新所有基因组Size.xml文件以包括基因组名称:genus单个类(源建)。06/06/14-MDSBowtieIndex添加到智人系统UCSC和hg19小RNA分析05/28/14-添加以下新构建(物种、源码、构建):Celegans,Ensembl,WBCEL235G加勒斯集团Galgal4Osativajaponica,Ensembl,IRGSP-1.0SCerevisiae,Ensembl,R64-111Zmys,ensembl,AGPv305/27/14-更新所有iGenomes基因注解清除基因组学习目录和平分引用iGeno02/27/14-C类固定错误染色体名elegans,ensembl,所有构建名称现在与注解文件一致03/25/13-更新基因注解所有基因组03/25/13 -- Added the following new builds (species, source, build): Ensembl: Canis_familiaris Ensembl CanFam3.1 Mus_musculus Ensembl GRCm38 Sus_scrofa Ensembl Sscrofa10.2 Rattus_norvegicus Ensembl Rnor_5.0 Schizosaccharomyces_pombe Ensembl (same build but added chrs MTR and AB325691) C_elegans Ensembl WBcel215 UCSC: Gallus_gallus UCSC galGal4 Pan_troglodytes UCSC panTro3 Pan_troglodytes UCSC panTro4 Bos_taurus UCSC bosTau6 Bos_taurus UCSC bosTau7 Canis_familiaris UCSC canFam3 Sus_scrofa UCSC susScr3 Rattus_norvegicus UCSC rrn5 NCBI: Drosophila_melanogaster NCBI build5.3 Drosophila_melanogaster NCBI build5.41 Mus_musculus NCBI GRCm38 Rattus_norvegicus NCBI Rnor_5.0 03/25/13 -- Added new species zebrafish - Danio rerio Danio_rerio Ensembl Zv9 Danio_rerio UCSC danRer7 Danio_rerio NCBI Zv9 03/25/13 -- Added dbsnp137 to Human, UCSC, hg19.03/25/13-所有酵母基因组添加核子序列03/25/13-向CBI基因组添加18S词典脱氧核糖核酸序列04/12/12-在所有基因组中添加Bowtie2索引(Bowtie2Index目录中)。03/14/12-更新所有基因注解、小RNA序列和变换注解文件03/14/12-重排序人类基因组支持GATK染色体排序03/14/12 -- Added the following new builds (species, source, build): Bos taurus, Ensembl, UMD3.1 (note Ensembl is now supporting this build instead of Btau_4.0) Drosophila melanogaster, Ensembl, BDGP5 Escherichia_coli_K_12_DH10B, Ensembl, EB1 Pan troglodytes, Ensembl, CHIMP2.1.4 Saccharomyces cerevisiae, Ensembl, EF4 Schizosaccharomyces pombe, Ensembl, EF2 Caenorhabditis elegans, UCSC, ce10 Saccharomyces cerevisiae, UCSC, sacCer3 Arabidopsis thaliana, NCBI, TAIR10 Bos taurus, NCBI, Btau4.6.1 Canis_familiaris, NCBI, build3.1 Gallus gallus, NCBI, Build3.1 Sus scrofa, NCBI, Sscrofa10.2 Saccharomyces cerevisiae, NCBI, build3.1 03/14/12 -- Renamed B.subtilis,ensembl,EB2染色体从chr到Chromome匹配基因注解命名03/14/12-新添加BWA索引格式支持所有基因组并保持旧版格式(v0.5.x)单存目录03/14/12-重命名picard词典文件从group.fa.di03/14/12-向NCBI基因组添加基因注释文件格式refFlat.txt.gz所有基因注解基因组现在应备有refFlat.txt.gz文件03/14/12-修改GTF文件属性顺序,从'gene_id'和'trascript_id'开始03/14/12-从UCSC和Ensempl基因组删除Group_size.xml文件,因为该文件现由CASAVA v1.7和v1.8生成02/28/12-Ensembl添加牛猪变换文件02/09/12-添加Bsubtilis基因组-indibleblis_subtilis_168源编译12/02/11-添加Soybean基因组-物种Glycine最大值11/11-添加Rhesusmaca11/01/11-添加dbsnp结构128-13008/30/11-更新所有基因注解、小RNA序列和变换注解文件08/30/11-添加新Ensembl构建YeastCerevisiaeEF3新建NCBImalanogaster结构5.3,鼠标结构37.2,Pig Sscrofa10和WormelegansWS19508/30/11-NCBI添加进化labda基因组08/30/11-在所有iGenomes新序列/BWAIndex目录中添加BWA索引08/30/11-所有iGenomes序列/ballGenomeFasta文件夹中添加samtops索引和picard词典08/30/11-修改所有GTF文件08/30/11-添加Dmelanogaster串行大数序列目录07/15/11-人类编译GRCh37、鼠标编译NCB37、M鼠标NCBIbuilding37.1、M鼠标UCSCmm9、RGSC3.4、RCBIRGSC_v3.4和RatUCSCrn406/27/11-添加dbsnp构建132数据04/27/11-删除NCBI基因组e.xml文件,XML标签不允许以数字开头的染色体名04/17/11-修改所有NCBI染色体名称从QQQQQQQET前缀改成无前缀CASAVA v1.8中RNA工作流需要此本地NCBI命名协议04/17/11-NCBI所有基因注解文件现在都有一个子元md.gz文件从NCBI下载非修改新建文件后端_gene.group_label.txt包含解析初级汇编所需的后端_gene群标签04/17/11-修改所有大序列快进文件,因为CASAVA v1.8不再允许多高速文件04/17/11-重命名imeochondrial染色体修改后名称与iGenomes中所有其他NCBImiodrial染色体一致04/17/11-向顺序目录添加全GenomeFasta新建目录包含单多快递文件并带染色体序列BowtieIndex目录现在含有与此文件相交链路04/17/11-向iGenome注解目录添加SmallRNA微RNA序列文件成熟和不成熟序列将添加到新目录中04/17/11-删除NCBI基因组老式基因库库,因为染色体名不再匹配NCBI染色体名从这些归档文件仍然存于注解归档目录中04/17/11-从当前所有注解目录删除复选目录,因为这些目录用于预设CASAVA v1.604/17/11-更新NCBI基因批注文件03/16/11-添加细菌基因组Sorgium_cellumsum_So_ce_5603/16/11-添加酵母基因组Schizosacchamyces_Pombe02/14/11-更新外部iGenomes02/07/11-更改目录目录结构注解包含子目录Gene、Variation和档案档案目录目前包含所有子目录归档(这也适用于新建基因组Studio档案目录)。基于此目录结构变化, 请重发所有IGENOME02/07/11-更新所有iGenomes注解文件02/07/11-添加新品种大米、高梁和玉米02/07/11-添加新细菌BCereusATCC10987AeruginosaPAO1Rspraeroide 2.4.1和SeurusNCTC832502/07/11-添加新建设UMD3.102/07/11-添加新源IllumaRTA软件计算误差率时使用此引用序列02/07/11-CBI和UCSC添加变异说明02/07/11-合并Ensembl构建iGenome构建名为汇编名README.txt文件注解目录中现在包含当前注解文件Ensempl发布号VERSION.txt文件信息现在包含在README.txt中02/07/11-NCBI构建名称更新叶洛根斯更新后需要命名牛Btau4.0至Btau4.2,马积2.1至EquCab2.0,鼠积4.1至RGSC_v3.4和Celegans构建8.1WS猪造1.1代之以scrofa9.202/07/11-删除所有NCBI后端_gene.md.gz文件支持refFlat.txt.gz所有iGenomes可用注解文件现在应该有refFlat.txt.gz和GTF文件前自定义reflat文件,如reflat.elandv.17.txt.g02/07/11-删除kgXref.txt,已知TorefSeq.txt,refSeqSeqSimary.txt和CBI基因库注解文件02/07/11-修改载录flat.txt和refGene.txt中出错CASAVAv1.7:C17orf8802/07/11-重命名PhiXchromome02/07/11-从UCSC注解目录删除复数目录,CASAVA v1.6仅使用NCBI式染色体名02/07/11-注解目录中的README.txt文件现在包含注解文件上次下载日期01/28/11-重命名reflat.elandrnav1.7.txt.gz10/19/10-改名SqushedChromomes目录以这种方式,物种、源头和构造将出现在GERALD摘要.htm中10/19/10-向每个压缩iGenome顶层添加iGenome概述10/19/10-CBI缺少Gene坐标注解10/19/10-开始修改日志