text: user14059: I have plotted a heat-map with 235 rows and 570 columns which is below: how do we make clear names of row and columns on this graph using R?
  
  
  user16676: You don't, simple as that, it is too many in both columns and rows to show them all. You could shrink size, but then it becomes unreadable. You can highlight individual genes (rows) that are important to support the message you want to send with that experiment, with packages such as ComplexHeatmap, see the Mark annotation section.
  Alternatively, you can use something like hierarchical clustering to form groups, then make functional annotations (such as REACTOME terms) and then annotate eaqch cluster with selected terms, again to support the message you want to send. Go through the ComplexHeatmap manual, lots of examples with code there to get inspiration from.
  As for the columns, you could use block annotations to color-highlight columns bhelonging to the same experimental group, or split the heatmap by these groups to put some visual separation/guidance.
  
original_text: 14059: <p>I have plotted a heat-map with 235 rows and 570 columns which is below: how do we make clear names of row and columns on this graph using R?</p>
  <p><a href="https://i.stack.imgur.com/9s74d.png" rel="nofollow noreferrer"><img src="https://i.stack.imgur.com/9s74d.png" alt="enter image description here" /></a></p>
   16676: <p>You don't, simple as that, it is too many in both columns and rows to show them all. You could shrink size, but then it becomes unreadable. You can highlight individual genes (rows) that are important to support the message you want to send with that experiment, with packages such as <a href="https://jokergoo.github.io/ComplexHeatmap-reference/book/index.html" rel="nofollow noreferrer">ComplexHeatmap</a>, see the <a href="https://jokergoo.github.io/ComplexHeatmap-reference/book/heatmap-annotations.html#mark-annotation" rel="nofollow noreferrer">Mark annotation</a> section.</p>
  <p>Alternatively, you can use something like hierarchical clustering to form groups, then make functional annotations (such as REACTOME terms) and then annotate eaqch cluster with selected terms, again to support the message you want to send. Go through the ComplexHeatmap manual, lots of examples with code there to get inspiration from.</p>
  <p>As for the columns, you could use <a href="https://jokergoo.github.io/ComplexHeatmap-reference/book/heatmap-annotations.html#block-annotation" rel="nofollow noreferrer">block annotations</a> to color-highlight columns bhelonging to the same experimental group, or split the heatmap by these groups to put some visual separation/guidance.</p>
  