-
Can you make linear plasmid map with this program. I would like to show primers on the DNA sequence and I can't do that with a circular map due to the sizes of the primers
-
As the name suggest, there is a broken link in the [Single stranded circular DNA tutorial](https://github.com/marrink-lab/polyply_1.0/wiki/Tutorial:-Single-stranded-circular-DNA). We use the `amber14-…
-
I am trying to simulate a three fragment golden gate type assembly where the end product is not a circular dna but a linear dna.
If i run the below code with three fragments suitable for circular a…
-
I am new to eccDNA identification .After reading the two articles of Circle-Map and tutorials, I have some questions of using Repeats subcommand : Why Repeats need not to extract discordant paired rea…
-
Hi,
I ran the program with the command
`virsorter run --prep-for-dramv -w DNA.results.out -i /data/LiuPeng/DNA.results/contigs.fa -j 110 all`
and got the following results,
> [2020-12-25 11:19 …
-
Dear AmpliconSuite Developers,
First of all, thank you for developing such a great software that provides a lot of convenience for ecDNA research. I encountered a little difficulty when trying to a…
-
It is possible to create, serialize and deserialize a Collection that includes DnaComponents that have SequenceAnnotations whose subComponents refer back to the original DnaComponent.
The serializer…
Juul updated
12 years ago
-
Hi,
I am analyzing the p- and a-contigs of a FALCON assembly, and within the p-contigs I see that there are canonical linear contigs (e.g. 003655F), circular contigs (3702) and linear "R" contigs (00…
-
Hi, I have read your impressive work "Extrachromosomal circular DNA drives oncogenic genome remodeling in neuroblastoma Nat Genet (2020)." But I didn't find some explicit criteria to distinguish ecDNA…
-
Dear Inigo:
Hello! About Circle-Map, I use Circle-Map version=1.1.3 to identify eccDNA, Circle-Map Realign command to get the result, I want to get the sequence of the spite reads of each eccD…