Mappers were evaluated for the given test data set. The table below shows the used parameters, mapping statistics and throughput for each mapper. Detailed results for a mapper can be displayed by clicking on its name in the table or the navigation on top.
|State||Mapper||Parameters||Correctly Mapped||Wrongly Mapped||Not Mapped||Throughput (reads/s)|
The figure below visualizes above results by directly comparing accuracy and throughput. The optimal mapper showing both highest accuracy and throughput, if any, will be located in the top right corner.
|Input Data Source||Simulated data set (created using Teaser)|
|Sequence Divergence||0.0010 overall mutation rate, 0.3000 indel fraction, 1.0000 indel average length|
|Reads by Edit Distance||The edit distance of a read is calculated as the total number of bases that are different to the reference. This includes mutations and sequencing errors.|
|Simulator||/project/teaser/genometeaser/software/mason illumina --read-name-prefix read --sq -n 150 -N 50000 --mp --ll 100 --le 50 --hi 0.000300 --hs 0.000700 --hm 1 --hM 4 --source-no-N /project/teaser/genometeaser/references/Saccharomyces_cerevisiae.fasta.sampled.2.1500.300.fasta|
|Sampling region length||1500|
|Reference Genome File||/project/teaser/genometeaser/references/Saccharomyces_cerevisiae.fasta|
|Read File(s)||/project/teaser/genometeaser/tests_generated/eba4a667114e0b530a53445828381094/reads1.fastq, /project/teaser/genometeaser/tests_generated/eba4a667114e0b530a53445828381094/reads2.fastq|
|Gold Standard Alignment File||/project/teaser/genometeaser/tests_generated/eba4a667114e0b530a53445828381094/mapping_comparison.sam|
This plot shows the fractions of correctly, wrongly and not mapped reads for each mapper and the selected mapping quality cutoff. Reads that have been filtered using the mapping quality cutoff are shown as unmapped. The interactive legend can be used to, for example, display only the number of wrongly and not mapped reads.