Input files

Pair fastq raw data (.zip)
Input files (.zip)
├── A1-T1_1.fq
├── A1-T1_2.fq
├── B1-T1_1.fq
├── B1-T1_2.fq
├── args_meta_data.txt
└── cazy_meta_data.txt

Example data sets for testing

Example 1
A WMS dataset from Taizhou Longitudinal Cohort study. (BioProject PRJNA493884)  
Reanalysis

If you have uploaded sequence data and would like to change comparison groups, you can reupload two reanalysis meta-data files, namely args_meta_data.txt or cazy_meta_data.txt. (Please note that MAAWf will save the data for 500 hours, so input Task ID to check whether the sequence file exists before you upload reanalysis meta-data files)

reanalysis-meta-data (.txt)
args_meta_data.txt consists of three columns: SampleID, Name, Category. SampleID is the sample number, not repeatable, Name is the sample Name, which must be the same as the sample fileName, and Category is the sample grouping. The sample is as follows:

SampleIDNameCategory
1A1-T1A
2B1-T1B

cazy_meta_data.txt consists of three columns: #SampleID, GroupID. #SampleID is the sample number, not repeatable, and must be the same as the sample fileName. GroupID is the sample grouping. The sample is as follows:

#SampleIDGroupID
A1-T1A
B1-T1B
  Running speed and data size description

For online analysis, it takes about 2 hours to run a full workflow for a 1GB dataset using 4 threads (default=4 threads).

For local deployment, users can adjust N threads for parallel computing. For example, it takes 1 hour to run a full workflow for per 1.5-2 GB data using 16 threads.


  WMS data example
Input files

Create a new folder which contains all metagenomic sequences and two meta-data i.e., args_meta_data.txt and cazy_meta_data.txt, then zip (please note that other formats of package are not accepted and do not directly zip files instead of folders) the folder for uploading. Pair-ended fastq files must be named after samplename_1.fq and samplename_2.fq (avoid using “_” in the file name except _1 and _2 for forward and reverse reads) for forward and reverse reads, respectively:

Input files (.zip)
├── A1-T1_1.fq
├── A1-T1_2.fq
├── B1-T1_1.fq
├── B1-T1_2.fq
├── args_meta_data.txt
└── cazy_meta_data.txt

Single sample analysis is also supported for most of the pipelines. However, results files do not show comparison analyses.

args_meta_data.txt consists of three columns: SampleID, Name, Category. SampleID is the sample number, not repeatable, Name is the sample Name, which must be the same as the sample fileName, and Category is the sample grouping. The sample is as follows:

SampleIDNameCategory
1A1-T1A
2B1-T1B

cazy_meta_data.txt consists of three columns: #SampleID, GroupID. #SampleID is the sample number, not repeatable, and must be the same as the sample fileName. GroupID is the sample grouping. The sample is as follows:

#SampleIDGroupID
A1-T1A
B1-T1B

Task ID

Task ID will be used as the unique identifier for running the parameter and result queries, so be sure to keep this id in mind.