Ali Mirza
Ali Mirza
Megahit created a blank `final.contigs.fa` file on my smallest sample (2 million reads). `final.contigs.fa.300fa` file is missing. I don't have issues with other samples. The job ran with no apparent...
May you explain how the count and abundance are calculated for each protein-coding gene function profile? For example, how are counts and abundance calculated for MetaCyc pathways? Especially considering that...
Does MetaErg perform any gene abundance normalization before mapping to higher functional Ontologies/pathways? The library size of my metagenomic samples are highly variable and without normalizing there will likely be...
I am loving MetaErg. It makes annotations much easier. Thank you! Many of my jobs had to be canceled while running, unfortunately. Nothing to do with MetaErg. I know you...
I recieved the following error for multiple samples: `DBD::SQLite::st execute failed: disk I/O error at /Drives/K/amirza/MetaErgInstallHelper/metaerginstall/metaerg/bin/output_reports.pl line 1141` How can I prevent this problem in the future? Perhaps a database...
Hi, Great pipeline! Its such a pain to install all the packages necessary, especially the Perl modules - which I was unsuccessful. It would be great to make it easier...
### Description of feature Greengenes2 recently came out. Greengenes2 is a new release of the Greengenes database that has been redesigned from the ground up and backed by whole genomes,...
## Feature Request I propose an enhancement to the ANCOMBC2 tool to support using taxa as explanatory variables, catering to the substantial interest within the research community in studying the...
What is ANCOM-BC2's approach for determining taxa that are globally different between 3 or more groups? Dunnett's test is not a global test; rather, it is a post-hoc test used...
Hi! I love the Additive Log-Ratio (ALR) transformation because it inherently accounts for differences in library size in microbiome data. Given a component Xi and a reference component G, the...