Ahmer Bin Hafeez

7 Questions 4 Answers 0 Followers

Questions related from Ahmer Bin Hafeez

How to insert unusual dehydrated amino acids in a Lantibiotic (peptide) structure?

Hi, I am trying to insert dehydrated amino acids into a lantibiotic structure. Lantibiotics have serine and threonine residues that are posttranslationally modified and dehydrated to form...

29 February 2024 7,899 4 View

Why BLAST Ring Image Generator (BRIG) not showing some genomes in the ring image?

I am making a circular map with BRIG where I use multi-fasta files as a reference and 5 draft genomes as queries. The problem is that I don't get rings for my specific genomes, though BRIG doesn't...

27 May 2023 9,621 0 View

How to predict plasmids from plasmid spades?

Hi, I am trying to find plasmids from my bacterial WGS. I want to know if for plasmid prediction I should run plasmidsSPAdes after the spades assembly pipeline or if it can be run...

18 October 2022 824 0 View

How to know if the assembled bacterial genome is circular or linear?

Hello, I performed De Novo assembly of bacterial species. How to know If the assembled genome is circular or linear. Thanks.

11 August 2022 2,518 2 View

What if the genome assembly of approximately 4MBs have large number of contigs i.e. 131?

How to improve the genome quality of the assembly that has such a large number of contigs. The genome size is approx ~4Mb. Is it normal to have such a large number of contigs? or if not what...

30 June 2022 9,880 0 View

What if BLAST results show similar Percentage , query coverage, e value with more than 3 species?

I did 16srRNA sequencing (sangar platform) of PCR amplicons. Did trimming of forward and reverse chromatogram reads and merged them using HVDR Fragment Merger Tool using different parameters. With...

11 April 2022 9,317 3 View

Does anyone has experience with BBmap for NSG Analysis?

I am trying to run BBmap but I am getting this error ~/bbmap$ bash stats.sh /root@wch7p10204:/home/szweda/bbmap/resources/phix174_ill.ref.fa.gz Exception in thread "main"...

09 February 2022 5,781 2 View