Re: [galaxy-user] cufflinks FPKM problem

]）:+ ? Best wishes - 原始邮件 - 发件人: "Paul Korir" 收件人: "lishiyong" 抄送: "tophat.cufflinks" , "galaxy-user" , "高欢" 发送时间: 星期一, 2011年 4 月 11日 下午 11:10:56 主题: Re: [galaxy-user] cufflinks FPKM problem Hi Li, Tophat includes a custom tag 'XS' a

Re: [galaxy-user] cufflinks FPKM problem

04-11 23:19:10 收件人： lishiyong 抄送： tophat.cufflinks; galaxy-user; 高欢 主题： Re: [galaxy-user] cufflinks FPKM problem Cufflinks requires an 'xs' tag on each read in the bam file. Only tophat does this. You can write a script to add this or remap with tophat. How much of a diff

Re: [galaxy-user] cufflinks FPKM problem

-- > *发件人：* Ryan Golhar > *发送时间：* 2011-04-11 23:19:10 > *收件人：* lishiyong > *抄送：* tophat.cufflinks; galaxy-user; 高欢 > *主题：* Re: [galaxy-user] cufflinks FPKM problem > Cufflinks requires an 'xs' tag on each read in the bam file. Only tophat >

Re: [galaxy-user] cufflinks FPKM problem

Cufflinks requires an 'xs' tag on each read in the bam file. Only tophat does this. You can write a script to add this or remap with tophat. How much of a difference do you see between tophat and bioscope? Please excuse any typos -- Sent from my iPhone On Apr 11, 2011, at 9:46 AM, lishiyong w

Re: [galaxy-user] cufflinks FPKM problem

Hi Li, Tophat includes a custom tag 'XS' at the end of spliced read alignments which your pipeline is not aware about. The following is taken from http://cufflinks.cbcb.umd.edu/manual.html "Cufflinks takes a text file of SAM alignments as input. For more details on the SAM format, see the specif