<html><head><meta http-equiv="Content-Type" content="text/html; charset=utf-8"></head><body style="word-wrap: break-word; -webkit-nbsp-mode: space; line-break: after-white-space;" class="">Arquivos GTF, eu quis dizer<div class=""><br class=""></div><div class="">Daniel</div><div class=""><br class=""></div><div class=""><br class=""><div><br class=""><blockquote type="cite" class=""><div class="">On 4 Aug 2022, at 21:55, Cesar Rabak por (R-br) <<a href="mailto:r-br@listas.c3sl.ufpr.br" class="">r-br@listas.c3sl.ufpr.br</a>> wrote:</div><br class="Apple-interchange-newline"><div class=""><div dir="ltr" class="">Algumas sugestões dadas aqui são interessantes, <b class="">mas</b> a importação dos seus dados indica que tens as linhas 10 e 162 com mesmo nome de gene "AR".<div class=""><br class=""></div><div class="">Isso perturba a importação da 1ª coluna como nome de linhas (<i class="">rownames</i>), tanto se fosse usada o parâmetro <font face="monospace" class="">row.names=1</font> na chamada a <font face="monospace" class="">read.csv()</font> ou se a vírgula inicial da primeira linha do arq CSV fosse retirada...</div><div class=""><br class=""></div><div class="">HTH</div></div><br class=""><div class="gmail_quote"><div dir="ltr" class="gmail_attr">On Thu, Aug 4, 2022 at 10:52 AM Michele Claire Breton por (R-br) <<a href="mailto:r-br@listas.c3sl.ufpr.br" class="">r-br@listas.c3sl.ufpr.br</a>> wrote:<br class=""></div><blockquote class="gmail_quote" style="margin:0px 0px 0px 0.8ex;border-left:1px solid rgb(204,204,204);padding-left:1ex"><div dir="ltr" class="">Caríssimos(as) utilizadores(as) do R,<div class=""><br class=""></div><div class="">Estou em outro nível de problema.</div><div class="">Quero converter FPKM em log2CPM. Para tanto, fiz o seguinte: <br clear="all" class=""><div class=""><br class=""></div><div class="">dados<-read.csv("/home/Genes interesse NePCa.csv")<br class="">head(dados)<br class="">class(dados)</div><div class=""><br class=""><b class="">[1] "data.frame"</b></div><div class=""><br class="">geneLength <- rowMeans(dados)<br class=""></div><div class=""><b class="">Error in rowMeans(dados) : 'x' must be numeric</b></div><div class=""><pre aria-label="Console Output" role="document" id="gmail-m_5766506115061146594gmail-rstudio_console_output" style="font-family:"Ubuntu Mono",monospace;font-size:18.6667px;outline:none;border:none;word-break:break-all;margin-top:0px;margin-bottom:0px;line-height:1.25;color:rgb(255,255,255);background-color:rgb(15,15,15);white-space:pre-wrap" class=""><span role="document" style="outline:none" class=""><span style="color:rgb(255,102,0)" class=""></span></span></pre><br class=""></div><div class=""><pre aria-label="Console Output" role="document" id="gmail-m_5766506115061146594gmail-rstudio_console_output" style="font-family:"Ubuntu Mono",monospace;font-size:18.6667px;outline:none;border:none;word-break:break-all;margin-top:0px;margin-bottom:0px;line-height:1.25;color:rgb(255,255,255);background-color:rgb(15,15,15);white-space:pre-wrap" class=""><span role="document" style="outline:none" class=""><span style="color:rgb(255,102,0)" class=""></span></span></pre><pre aria-label="Console Output" role="document" id="gmail-m_5766506115061146594gmail-rstudio_console_output" style="font-family:"Ubuntu Mono",monospace;font-size:18.6667px;outline:none;border:none;word-break:break-all;margin-top:0px;margin-bottom:0px;line-height:1.25;color:rgb(255,255,255);background-color:rgb(15,15,15);white-space:pre-wrap" class=""><span role="document" style="outline:none" class=""><span style="color:rgb(255,102,0)" class=""></span></span></pre><pre aria-label="Console Output" role="document" id="gmail-m_5766506115061146594gmail-rstudio_console_output" style="font-family:"Ubuntu Mono",monospace;font-size:18.6667px;outline:none;border:none;word-break:break-all;margin-top:0px;margin-bottom:0px;line-height:1.25;color:rgb(255,255,255);background-color:rgb(15,15,15);white-space:pre-wrap" class=""><span role="document" style="outline:none" class=""><span style="color:rgb(255,102,0)" class=""></span></span></pre></div><div class=""><pre aria-label="Console Output" role="document" id="gmail-m_5766506115061146594gmail-rstudio_console_output" style="font-family:"Ubuntu Mono",monospace;font-size:18.6667px;outline:none;border:none;word-break:break-all;margin-top:0px;margin-bottom:0px;line-height:1.25;color:rgb(255,255,255);background-color:rgb(15,15,15);white-space:pre-wrap" class=""><span role="document" style="outline:none" class=""><span style="color:rgb(255,102,0)" class=""></span></span></pre><pre aria-label="Console Output" role="document" id="gmail-m_5766506115061146594gmail-rstudio_console_output" style="font-family:"Ubuntu Mono",monospace;font-size:18.6667px;outline:none;border:none;word-break:break-all;margin-top:0px;margin-bottom:0px;line-height:1.25;color:rgb(255,255,255);background-color:rgb(15,15,15);white-space:pre-wrap" class=""><span role="document" style="outline:none" class=""><span style="color:rgb(255,102,0)" class=""></span></span></pre><pre aria-label="Console Output" role="document" id="gmail-m_5766506115061146594gmail-rstudio_console_output" style="font-family:"Ubuntu Mono",monospace;font-size:18.6667px;outline:none;border:none;word-break:break-all;margin-top:0px;margin-bottom:0px;line-height:1.25;color:rgb(255,255,255);background-color:rgb(15,15,15);white-space:pre-wrap" class=""><span role="document" style="outline:none" class=""><span style="color:rgb(255,102,0)" class=""></span></span></pre>dadoslog2cpm <- convertCounts(dados,<br class=""> unit = "cpm",<br class=""> log = TRUE,<br class=""> normalize = "tmm")<br class=""></div><div class=""><b class="">Error: countsMatrix must be a numeric matrix or dataframe of N genes x M Samples. All columns must be numeric.</b><br class=""></div><div class=""><pre aria-label="Console Output" role="document" id="gmail-m_5766506115061146594gmail-rstudio_console_output" style="font-family:"Ubuntu Mono",monospace;font-size:18.6667px;outline:none;border:none;word-break:break-all;margin-top:0px;margin-bottom:0px;line-height:1.25;color:rgb(255,255,255);background-color:rgb(15,15,15);white-space:pre-wrap" class=""><span role="document" style="outline:none" class=""><span style="color:rgb(255,102,0)" class=""></span></span></pre><pre aria-label="Console Output" role="document" id="gmail-m_5766506115061146594gmail-rstudio_console_output" style="font-family:"Ubuntu Mono",monospace;font-size:18.6667px;outline:none;border:none;word-break:break-all;margin-top:0px;margin-bottom:0px;line-height:1.25;color:rgb(255,255,255);background-color:rgb(15,15,15);white-space:pre-wrap" class=""><span role="document" style="outline:none" class=""><span style="color:rgb(255,102,0)" class=""></span></span></pre><br class=""></div><div class="">Não entendo o que possa estar errado. A tabela de dados está em anexo. Vocês podem me ajudar, por favor?</div><div class=""><br class=""></div><div class="">Obrigada,</div><div class=""><br class=""></div><div class="">Michele</div>-- <br class=""><div dir="ltr" class=""><div dir="ltr" class="">------------------------------------------------------------------------<br class=""><div class=""><i class=""><b class="">Dra. Michele Claire Breton</b></i></div><div class="">Researcher in Bioinformatics<br class=""></div><div class=""><div class="">PhD in Cellular and Molecular Biology</div><div class="">CICS - Health Sciences Research Center</div><div class="">Faculty of Health Sciences</div><div class="">University of Beira Interior</div><div class="">Covilhã - Castelo Branco - Portugal</div></div></div></div></div></div>
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