vincentappiah
vincentappiah
Hello All, I performed a pangenome analysis with roary on a set of data. And I am finding it difficult to interpret the pangenome frequency chart. I checked on the...
Hi @tseemann I observed an inconsistency when annotating a genome with prokka. First I downloaded the M. ulcerans Agy99 genome ( fasta and genebank format). I performed annotation on the...
Hi @malonge . I run ragtag and identified some sequences are unplaced. Is there anyway to find out which sequences were unplaced? I would like to do further analysis on...
In the example given in your document, the data used was a human genome. Can SNPRelate be used to analysis Plasmodium falciparum snp data as well?
Dear Developers, I encountered the error message above after normalizing my bcftools and using the view command I used this command to normalize _bcftools norm -m-both -f data/ref/chr8.fa VCF/variants.vcf.gz -O...
Hi I was trying to convert my vcf to haplotype . I used python3.6 to run vcf-simplify and I got the error message below Traceback (most recent call last): File...
Hi, I had the above error message when I was using sickle to trim some reads . Below are the reads http://ftp.sra.ebi.ac.uk/vol1/run/ERR333/ERR3335404/P7741_R1.fastq.gz http://ftp.sra.ebi.ac.uk/vol1/run/ERR333/ERR3335404/P7741_R2.fastq.gz Here is the full error message Warning:...
Dear Developers, We recently used sistr to serotype some salmonella samples. We realized that the Sistr serovar overall prediction is different from the RefSeq match. In such instances, which serovar...
Dear Developers, I tried aggregating fastp reports (multiqc *fastp.json) And when I examined the html output, I realised the filenames had extra names. For example the original name SRR10903401 is...