Dr. Manoj Kumar
Dr. Manoj Kumar
Hi, I am trying to install Bioperl v1.7.2 in my Ubuntu system. I am using following command but I am uncertain to use a particular version of Bioperl for the...
I am using chewBBACA for identifying cgMLST of species Staphylococcus pseudintermedius. Please let me know if I am able to get it using the database to get the cgMLST information...
I am trying to make phylogenetic tree using binary data. I tried using grapetree -p MGE_binary.txt -m MSTreeV2 >out.phy. Please suggest. Example Input file: C1 C3 C5 D1 gene1 1...
Hi, when I open the file "gene_presence_absence.csv" in LinerOffice Calc, it takes wrong indentation and replacing empty cells in "" and adding "" with every word in each line.
I am trying to make phylogenetic tree using binary data. I tried using iqtree -s MGE_binary.txt. Please suggest. Example Input file: C1 C3 C5 D1 gene1 1 0 1 0...
Hi, I have the results of accessory_binary_genes.fa.newick and gene_presence_absence.csv generated from roary. However, in the results at phandango the image is in different panels. Could you please let me know...
Hi, I am using BRIG for genome comparison. Please let me know if I can use it to represent the gene of interest in the genome. Thank you, Manoj
Hi, I have downloaded VAPiD-master folder and running VAPID with the following command, it shows following error. Please help me to figure out the error. run command: python /VAPiD-master/vapid.py --db...
Hi, I am looking to analysis my MinION data to identify quasispecies. Therefore, I have some queries: I have input files: 1. reference files (fasta format) 2. control fastq file...
I am trying to run the following command to download the database. However, it generates the following package error but it is already in my system. krakenuniq-download --db krakenuniq_db/ --threads...