meaning of the Per tile sequence quality

Question

[daffodil]

Hello every body

I wonder if any body tell me about Per tile sequence quality?

Answer 1

[Devon Ryan]

The flow cells on which the sequencing is performed are subdivided into "tiles". Most commonly you'll see tiles near the edges (the ones ending in 1 or 16, I think) have lower quality. You can also occasionally see the appearance of air bubbles in a graph of quality by cycle by tile, which helps explain sequencing quality issues.

[daffodil]

Dear Devon thank you so much your means is that the in this part of fasqc the heatmap of per tile quality score shows the reads in each tile have good quality score or not? would you please tell me the amount of quality score was shown in y axix or not?

[Devon Ryan]

It's a heatmap, the Y-axis is a tile, the quality is the color. The color is the average (or maybe median, I'm sure it's documented somewhere) quality in that tile in that cycle.

[User 59]

There's an 'add comment' function on BioStars specifically so you don't have to append comments as new answers...