Bacteria genome plasticity

Can anyone suggest me tool to detect plasticity in bacteria genome

RGPFinder is available but their is no option to upload custom genome.

Thank you inadvance

assembly

• 1,865 views • link

updated 8.5 years ago by ghataksnd •

• written 10.0 years ago by Sudhir Jadhao

A search brings up Genoplast.

• 1 views • link

written 10.0 years ago by GenoMax

1 answer

You may try micropan package for R which has an utility called genome fluidity.

• 0 views • link

written 8.5 years ago by ghataksnd •

More posts like this

How to do synteny analysis between two bacterial genome?
written 7.4 years ago by Paul

I have a novel bacterial genome of 8Mb length (Genome1), which I want to compare it with existing well annotated gram-negative bacterial genome (Genome2). Could …
tool to detect intergenic spacer
written 8.6 years ago by nora •

Hello, I need a tool to detect intergenic spacer in bacteria, mold and yeast, please suggest me an example
how to analyse chip-chip on normalized data without bpmap file or how to select bpmap file for your…
written 9.3 years ago by Sudhir Jadhao

Hello Everyone, I want to analyse chip-chip data. I have downloaded CEL file and normalized data file from NCBI geo. 1. To call peak using …
Biological Replicate Chip-exo
written 9.5 years ago by Sudhir Jadhao

Hello everyone, I have biological replicate, I have called peaks separately and to get final peaks I have used IDR and common peak with at …
How to Filter MACS1.4 output on the basis of Normalized Strand Cross-correlation coefficient (NSC) …
written 9.7 years ago by Sudhir Jadhao

Hello Everyone, I have Macs 1.4 result. I want to filtered out MACS result on the basis of NSC and RSC score. Can anyone please …
SnpEff html result
written 10.0 years ago by Sudhir Jadhao

Hello everyone, I have snpeff output (.vcf and html). from that I want to extract below information with their co-ordinate (detail information) Nonsynonymous (missense, nonsene) …
Can anyone please suggest me tool for fast alignment (input: eukaryotic gene sequences (769 KB) and…
written 10.0 years ago by Sudhir Jadhao

Hi guys, Can anyone suggest me tool that is faster than blastx. My input is : eukaryotic transcript (Average 769 KB) Database is :NRDB There …
Representation of resistance genes, mobile/transposable elements and the other genes/open in bacter…
written 10.2 years ago by Sudhir Jadhao

Hello guys, I have bacteria genome assembly, I have predicted genes using RAST server and mobile elements using ISfinder. Now I want to plot resistance …
Plasmid Genome Assembly
written 10.6 years ago by Sudhir Jadhao

Which will be best tool for plasmid assembly for illumina truseq data. I have used velvet and spades but result are not good. Can anyone …
Tool for PacBio Denovo assembly of diploid plant genome (size 500mb) having around 52x coverage
written 10.9 years ago by Sudhir Jadhao

Hello Everyone I have query regarding tool for de novo assembly of PacBio data. I have plant genome data at 52X coverage. The genome size …