Seems like when the Aptamer ID of the seed sequence is too large, AptaTRACE GUI won't find the seed sequence ( may usually display in the first line as the most abundant sequence):
the exported clustertable:
Eg: Like the second row: cluster ID is 110682798, and the Seed ID is 206864032, but when I open the GUI and find this cluster, I just can't find its seed sequence in GUI (the first row is in the same situation):
the corresponding GUI:
(I think may be there's a cutoff when there's too many members in a cluster, and unfortunately the seed sequence belongs to tose omitted.)
AptaTRACE GUI:
The AptaTRACE GUI will have a problem when too many aptamers have the same motif.
It seems like using single click on the button like "Count" to arrange aptamers will only apply for aptamers within the first page.
the exported motif_n_aptamers.txt
the same motif containing aptamers within GUI：
We can find Aptamer 30693254(the second row of the exported aptamers) is missing. (and it turned out to be on the next page.)
May be it will be better to make sure users can sort all aptamers rather than only the first page.
Plus: May be it will be better to add more features with export, like to support export clustertable and clusters based on selected round rather than the highest, or to support export aptamers analyzed by aptatrace to contain more cols like the corresponding CPM of every rounds especially the control selection rounds. Or may be features like to add new or remove some rounds of an existing parsed data can be supported.
AptaCluster GUI:
Seems like when the Aptamer ID of the seed sequence is too large, AptaTRACE GUI won't find the seed sequence ( may usually display in the first line as the most abundant sequence):
the exported clustertable:
the corresponding GUI:
AptaTRACE GUI:
The AptaTRACE GUI will have a problem when too many aptamers have the same motif. It seems like using single click on the button like "Count" to arrange aptamers will only apply for aptamers within the first page.
the exported motif_n_aptamers.txt
the same motif containing aptamers within GUI：
Plus: May be it will be better to add more features with export, like to support export clustertable and clusters based on selected round rather than the highest, or to support export aptamers analyzed by aptatrace to contain more cols like the corresponding CPM of every rounds especially the control selection rounds. Or may be features like to add new or remove some rounds of an existing parsed data can be supported.
AptaSUITE is awesome, THANKYOU!