Bruno C. Vellutini

Hello! I have written a whole manuscript with `vim-pandoc` and the formatting and reference autocompletion work wonderfully. Today I stumbled upon a small display quirk. I have the following sentence...

Order of labels_row in plot_transcript_heatmap

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Hello, I wanted to replace the transcript IDs for gene names in the heatmap generated by `plot_transcript_heatmap`. However, if I use the `pheatmap` argument `labels_row` as below, the gene names...

If I pass `cluster_transcripts = FALSE` to the `plot_transcript_heatmap`, the transcripts are still clustered because the default in `pheatmap` is `cluster_rows = TRUE`. This can be fixed by explicitly calling...

Getting unassigned sequence IDs

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Hello, The code for getting the unassigned IDs in the [tutorial](https://github.com/Magdoll/Cogent/wiki/Tutorial:-Using-Cogent-to-collapse-redundant-transcripts-in-absence-of-genome#getting-the-unassigned-sequences) does not seem right: ``` tail -n 1 test_human.partition.txt | tr ',' '\n' > unassigned.list # Outputs the last...

Hi :) I'm running Cogent for a large dataset and `run_preCluster.py` outputs a `preCluster_out.tucked.fasta` file. What are these transcripts? I had a look in the Cupcake code but couldn't figure...

Exemplo: ``` \newsavebox{\nome} \newenvironment{epigrafeFe}[1] { \sbox{\nome}{\textit{#1}} \begin{center} \begin{minipage}{0.7\textwidth} \vspace{4.5cm} } {\begin{flushright} \usebox{\nome} \end{flushright} \end{minipage} \end{center} \newpage } ``` Aplicação: ``` \begin{epigrafe}{Albert Einstein (1879$-$1955)} “Tenha em mente que tudo que você...

Exemplo: ``` \newcommand{\fichacatalografica}[1]{ \begin{titlepage} \espaco{1.1} \hspace{-2.5cm} \begin{minipage}{1.0\textwidth} \begin{espacosimples} \ifthenelse{\equal{\permissaocopia}{sim}}{\MakeUppercase{autorizo a reprodução...}}{não autorizo a reprodução...} \end{espacosimples} \end{minipage} \small \vspace*{13cm} \hspace{-2.5cm} \begin{minipage}{1.0\textwidth} \begin{center} \begin{tabular}{c} {\normalsize \bf \MakeUppercase{Ficha catalográfica}}\\\\ \end{tabular} #1 \end{center} \end{minipage}...

Comando para incluir informações sobre o documento centralizadas em um local do texto. Definir comandos no meta.tex. Exemplo: ``` \newcommand{\autor}[1]{\renewcommand{\MeLautorNome}{#1}} \autor{José da Silva Xavier} ```

Incluir campo para co-orientador.

Para inserir citações internas, por exemplo: ``` \newcommand{\figref}[1]{Figura~\ref{#1}} \newcommand{\tabref}[1]{tabela~\ref{#1}} \newcommand{\secref}[1]{seção~\ref{#1}} \newcommand{\apref}[1]{apêndice~\ref{#1}} ``` E para inserir figuras: ``` \newcommand{\imagem}[4]{\begin{figure}[H] \center \includegraphics[width=#4]{./imagens/#1} \caption{#2}\label{#3} \end{figure}} \imagem{banana.eps}{Esta é a legenda.}{fig:este_eh_o_label}{10cm} ``` Outra opção com...