All Questions
Tagged with assembly read-mapping
5
questions
3
votes
2
answers
278
views
Contamination on genome assembly
I had a question for the community.
I have a genome of a new species that has been sequenced via 150pb Illumina paired-end.
To verify the quality of the assembly I used the ...
- 199
1
vote
1
answer
998
views
Difference between paired-end, mate-pair and long read
I writing here because I have some questions for you.
I wondered what the essential differences were between paired-end, ...
- 199
2
votes
1
answer
46
views
Assemble reads for a specific gene
I have a lot of unassembled sequencing data and I want to build phylogeny for some genes from these data. I can retrieved the sequene by mapping reads to a reference sequence but if the two species ...
- 127
0
votes
0
answers
50
views
How to obtain the extended unaligned bases of the read in reference based genome assembly?
I did illumina read mapping based on a particular gene sequence (reference sequence) using the following command,
...
- 109
2
votes
0
answers
44
views
Calculating alignment/mapping time
I am trying to assemble a plant genome using AWS resources using velvet. Plant genome is huge (> 10 times human genome) and coverage is around 30 x. We are planning for de novo assembly with Velvet (...
- 21