matam

matam copied to clipboard

We are starting a very large sequencing project and would like to use MATAM to perform taxonomic assignment of samples. I see that the input file is a recombined fastq...

CaroB-M

Dears, **Describe the bug** I specified the option --cpu with 4, but finally only 1 was used and low memory was utilized. It makes the step of Overlapping-graph building very...

zuopengl

SortMeRNA is designed to align short reads, Illumina type, and is used as the starting step in MATAM. SortMeRNA is also used to re-align the assembled contigs onto the reference...

ppericard

https://keepachangelog.com/en/1.0.0/

ppericard

Component Search is a module used by MATAM, developed by @yoann-dufresne, and integrated into MATAM using submodules. Since it is only used by MATAM and is not actively developed, we...

ppericard

Hi, I am running MATAM assembly on my fastq files but while doing so, the program also generates a ton of files starting with "core-sga-XXX-nodeXXX". Why are these files being...

joao1980

Error in matam_assembly on Docker when running example file

5

Hi, Thanks so much for this program, it seems really cool! :) My working computer is a Mac, so I've been using Docker to run matam. I use an interactive...

rachelleLim

I always get this error whenever I do matam assembly.py ./matam_assembly.py -d DBDIR/SILVA_128_SSURef_NR95 -i /home/nada/matam-master/nohost1.fastq --cpu 4 --max_memory 10000 -v --perform_taxonomic_assignment "No valid binary found for componentsearch"

triplem90manas

I have a fasta file with a maker gene and I would like to extract it from raw illumina reads: The marker is in a fasta file with only one...

Lcornet

I want to construct a personalized database. However, from what I understood, I can go to SILVA and download the NR99 (clustered at 99 % identity) or the Ref (not...

mdsufz