General Information
Not all mapping and splicing tools are compatible with each other. Please refer to the table below to see which tools you can use together successfully. fastq only tools do only work with fastq files and not with bam files and therefore don’t depend on a mapping tool.
asgal |
aspli |
eventpointer |
irfinder |
majiq |
sgseq |
spladder |
whippet |
|
|---|---|---|---|---|---|---|---|---|
bbmap |
fastq only |
Yes |
No |
Yes |
No |
No |
Yes |
Yes |
contextmap |
fastq only |
Yes |
Yes |
Yes |
No |
No |
Yes |
Yes |
crac |
fastq only |
Yes |
Yes |
Yes |
Yes |
Yes |
Yes |
Yes |
dart |
fastq only |
Yes |
No |
Yes |
Yes |
No |
Yes |
Yes |
gsnap |
fastq only |
No |
No |
Yes |
No |
No |
Yes |
Yes |
hisat |
fastq only |
Yes |
Yes |
Yes |
Yes |
Yes |
Yes |
Yes |
mapsplice |
fastq only |
Yes |
Yes |
Yes |
Yes |
Yes |
Yes |
Yes |
minimap |
fastq only |
No |
No |
Yes |
Yes |
No |
Yes |
Yes |
segemehl |
fastq only |
Yes |
Yes |
Yes |
Yes |
Yes |
Yes |
Yes |
star |
fastq only |
Yes |
Yes |
Yes |
Yes |
Yes |
Yes |
Yes |
subjunc |
fastq only |
Yes |
Yes |
Yes |
Yes |
Yes |
Yes |
Yes |