All Questions
5
questions
3
votes
1
answer
69
views
compare fasta sequences in pairs and collect metrics
I have 96 fasta files (A1, A2, A3...) from one plasmid assembly pipeline, and I have another 96 fasta files (B1, B2, B3 ...) from another plasmid assembly pipeline.
I would like to compare pair ...
- 139
2
votes
2
answers
79
views
How can I improve or otherwise investigate an unreliable genome tree?
Summary My genome tree doesn't agree with my gene trees and I get the feeling that my genome tree might be wrong, possibly due to long branch attraction, but I don't know how to check/fix it.
...
- 1,007
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
1
answer
65
views
After KEGG and GO analysis, how to make tables+phylogenetic trees
hope everyone is ok. I used Trinity to do a de novo transcriptome assembly, then blastp/blastx and then used Blast2GO software to do KEGG and GO analysis. So i got some txt files with header :
for GO
...
- 21
3
votes
1
answer
268
views
How to assess the quality of assembled .fasta genome files?
I have assembled 3 .fasta files from contigs infastq format of 3 different Homo sapiens.
I would like to see if the assembled ...
- 1,447