I am new to genomics. Kindly forgive if this question doesn't make sense.
I have thousands of contigs from an assembly. I came across a paper where they have plotted a bar graph of the assembled contigs of Carp fish species across the chromosome of Zebrafish (Find it here). I am confused of extracting the data to plot graph like that. Is there any way to compare my contigs with the transcriptome data and plot like that. I came across much difficulty in text based comparison of the genes as it have errors. If you have any strategy in your mind please feel free to share. Thank you.