args_oap
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xinehc
ARGs-OAP: Online Analysis Pipeline for Antibiotic Resistance Genes Detection from Metagenomic Data Using an Integrated Structured ARG Database
 Hello! We used MGEdb as the custom database(https://github.com/KatariinaParnanen/MobileGeneticElementDatabase). However, an error occurred when we ran the second phase. Can you tell us how to solve this problem?
I have some metatranscriptomic data and I want to run it through ARGs-OAP, is this reasonable? If not, any other suggestions would be greatly appreciated. Thank you so much for...
Hello!! I am running args_oap on fastq files and in stage one I am getting the error as:  Kindly tell me the solution for this. I am getting...
WARNING: Output folder contains and/or , they/it will be overwritten. [2024-05-09 14:50:21] INFO: Processing ... [2024-05-09 14:50:21] INFO: Extracting target sequences using BLAST ... [2024-05-09 14:50:21] INFO: BLAST settings: 1260675...
Error: Unknown argument: "mt_mode" Error: (CArgException::eInvalidArg) Unknown argument: "mt_mode" Traceback (most recent call last): File "/home/meta/miniconda3/envs/args_oap/bin/args_oap", line 10, in sys.exit(main()) ^^^^^^ File "/home/meta/miniconda3/envs/args_oap/lib/python3.11/site-packages/args_oap/args_oap.py", line 97, in main options.func(options) File "/home/meta/miniconda3/envs/args_oap/lib/python3.11/site-packages/args_oap/stage_two.py",...
Hello, I have a question about the ’extracted.filtered.fa‘ file in the output of stage_two . May I ask if the file contains complete ARG-carrying read or only a partial sequence...
Hello. I am using version 3.2.4. I have about 900 sets of bipartite macro genomic data all reporting the following message when running stage_two: "No target sequence detected in file...
In ARGs-OAP V3.2, each sample produces paired-end files corresponding to two results of ARGs abundance. I wonder if the abundance of ARGs from each sample is the sum of the...
I want to know which version of sarg database https://github.com/xinehc/args_oap/tree/main/src/args_oap/db. Thank you very much!
Hi, when i tried to install arg_oap through code "conda install -c bioconda -c conda-forge args_oap" , there are something wrong, as follow: $ mamba install args_oap Looking for: ['args_oap']...
