December 20, 2019, at 02:39 AM
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- Galaxy workshop links
Link: https://www.bioinformatics.org/ftp/pub/mamed/gene_catalog.fasta.gz
Link: https://www.bioinformatics.org/ftp/pub/mamed/pfile1.fastq.gz
Link: https://www.bioinformatics.org/ftp/pub/mamed/pfile2.fastq.gz
Link: https://www.bioinformatics.org/ftp/pub/mamed/nucleotide.fasta
Link: https://www.bioinformatics.org/ftp/pub/mamed/protein.fasta
Link: https://www.bioinformatics.org/ftp/pub/mamed/gene_catalog.fasta
Link: https://www.bioinformatics.org/ftp/pub/mamed/pfile1.fastq
Link: https://www.bioinformatics.org/ftp/pub/mamed/pfile2.fastq
December 17, 2019, at 07:03 PM
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to:
Link: https://www.bioinformatics.org/ftp/pub/mamed/nucleotide.fasta
Link: https://www.bioinformatics.org/ftp/pub/mamed/protein.fasta
December 17, 2019, at 05:59 PM
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Link: https://www.bioinformatics.org/ftp/pub/mamed/gene_catalog.fasta.gz
Link: https://www.bioinformatics.org/ftp/pub/mamed/pfile1.fastq.gz
Link: https://www.bioinformatics.org/ftp/pub/mamed/pfile2.fastq.gz
December 16, 2019, at 04:38 AM
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Link: https://www.bioinformatics.org/ftp/pub/mamed/gene_catalog.fa
Link: https://www.bioinformatics.org/ftp/pub/mamed/pfile1.fq
Link: https://www.bioinformatics.org/ftp/pub/mamed/pfile2.fq
to:
Link: https://www.bioinformatics.org/ftp/pub/mamed/gene_catalog.fasta
Link: https://www.bioinformatics.org/ftp/pub/mamed/pfile1.fastq
Link: https://www.bioinformatics.org/ftp/pub/mamed/pfile2.fastq
December 15, 2019, at 06:02 AM
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December 15, 2019, at 06:02 AM
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- Galaxy workshop links
Link: https://www.bioinformatics.org/ftp/pub/mamed/gene_catalog.fa
Link: https://www.bioinformatics.org/ftp/pub/mamed/pfile1.fq
Link: https://www.bioinformatics.org/ftp/pub/mamed/pfile2.fq
October 10, 2019, at 03:56 PM
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'''''These codes are being prepared and will be included in the link above after customization and appropriate help.'''''
to:
'''''Read the README.txt file for more information'''''
October 10, 2019, at 03:54 PM
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Link: [[https://www.bioinformatics.org/ftp/pub/mamed]]
to:
- Download and unzip MetaGe.zip
Link: https://www.bioinformatics.org/ftp/pub/mamed/MetaGe.zip
October 09, 2019, at 05:32 AM
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'''These codes are being prepared and will be included in the link above after customization and appropriate help.
'''
to:
'''''These codes are being prepared and will be included in the link above after customization and appropriate help.'''''
October 09, 2019, at 05:30 AM
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These codes are being prepared and will be included in the link above after customization and appropriate help.
to:
'''These codes are being prepared and will be included in the link above after customization and appropriate help.
'''
October 09, 2019, at 05:30 AM
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'''- cd MAMED_metagenomic_data_analysis'''
'''- python2 mamed.py'''
The software and hardware requirements are contained in the MAMED-manual.pdf file.
Link:
[[https://www.bioinformatics.org/ftp/pub/mamed/MAMED-manual.pdf]]
Also, The Ubuntu virtual machine image for VirtualBox is available from the link below. MAMED is ready to run on the Ubuntu desktop. The root user password is '123456'. (file size: 7.2 GB)
Link:
[[https://www.bioinformatics.org/ftp/pub/mamed/MAMED_MG_Ubuntu.ova]]
to:
These codes are being prepared and will be included in the link above after customization and appropriate help.
October 09, 2019, at 05:27 AM
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'''- Download and unzip MAMED_metagenomic_data_analysis.zip'''
Link: [[https://www.bioinformatics.org/ftp/pub/mamed/MAMED_metagenomic_data_analysis.zip]]
to:
Link: [[https://www.bioinformatics.org/ftp/pub/mamed]]
October 09, 2019, at 05:26 AM
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'''This page contains the code for the paper:Beyond taxonomic analysis of microbiomes: A functional approach for revisiting microbiome changes in colorectal cancer'''
'''To run MAMED''':
to:
'''This page contains the code for the paper: Beyond taxonomic analysis of microbiomes: A functional approach for revisiting microbiome changes in colorectal cancer'''
'''All the codes of this paper are located in the below FTP link''':
October 09, 2019, at 05:22 AM
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'''Beyond taxonomic analysis of microbiomes: A functional approach for revisiting microbiome changes in colorectal cancer'''
to:
'''This page contains the code for the paper:Beyond taxonomic analysis of microbiomes: A functional approach for revisiting microbiome changes in colorectal cancer'''
October 09, 2019, at 05:16 AM
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'''MAMED: a pipeline for mapping-based analysis of metagenomic data'''
to:
'''Beyond taxonomic analysis of microbiomes: A functional approach for revisiting microbiome changes in colorectal cancer'''
August 20, 2019, at 11:54 AM
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'''To run MAMED'''
- Download and unzip MAMED_metagenomic_data_analysis.zip
to:
'''To run MAMED''':
'''- Download and unzip MAMED_metagenomic_data_analysis.zip'''
Changed lines 9-14 from:
- cd MAMED_metagenomic_data_analysis
- python2 mamed.py
to:
'''- cd MAMED_metagenomic_data_analysis'''
'''- python2 mamed.py'''
August 20, 2019, at 11:53 AM
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August 20, 2019, at 11:53 AM
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August 20, 2019, at 11:52 AM
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Link: [[https://www.bioinformatics.org/ftp/pub/mamed/MAMED-manual.pdf]]
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Link:
[[https://www.bioinformatics.org/ftp/pub/mamed/MAMED-manual.pdf]]
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August 20, 2019, at 11:52 AM
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Link: [[https://www.bioinformatics.org/ftp/pub/mamed/MAMED-manual.pdf]]
to:
Link: [[https://www.bioinformatics.org/ftp/pub/mamed/MAMED-manual.pdf]]
Also, The Ubuntu virtual machine image for VirtualBox is available from the link below. MAMED is ready to run on the Ubuntu desktop. The root user password is '123456'. (file size: 7.2 GB)
[[https://www.bioinformatics.org/ftp/pub/mamed/MAMED_MG_Ubuntu.ova]]
August 17, 2019, at 03:22 AM
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August 17, 2019, at 02:56 AM
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August 17, 2019, at 02:55 AM
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MAMED: a pipeline for mapping-based analysis of metagenomic data
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'''MAMED: a pipeline for mapping-based analysis of metagenomic data'''
August 17, 2019, at 02:55 AM
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August 17, 2019, at 02:54 AM
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[[user manual]]https://www.bioinformatics.org/ftp/pub/
to:
To run MAMED
- Download and unzip MAMED_metagenomic_data_analysis.zip
Link: [[https://www.bioinformatics.org/ftp/pub/mamed/MAMED_metagenomic_data_analysis.zip]]
- cd MAMED_metagenomic_data_analysis
- python2 mamed.py
The software and hardware requirements are contained in the MAMED-manual.pdf file.
Link: [[https://www.bioinformatics.org/ftp/pub/mamed/MAMED-manual.pdf]]
August 16, 2019, at 08:29 AM
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[[https://www.bioinformatics.org/ftp/pub/]]MAMED: a pipeline for mapping-based analysis of metagenomic data
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MAMED: a pipeline for mapping-based analysis of metagenomic data
August 16, 2019, at 06:15 AM
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[[[[Page link]]]]MAMED: a pipeline for mapping-based analysis of metagenomic data
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[[https://www.bioinformatics.org/ftp/pub/]]MAMED: a pipeline for mapping-based analysis of metagenomic data
August 16, 2019, at 06:09 AM
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MAMED: a pipeline for mapping-based analysis of metagenomic data
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[[[[Page link]]]]MAMED: a pipeline for mapping-based analysis of metagenomic data
[[user manual]]https://www.bioinformatics.org/ftp/pub/
August 16, 2019, at 06:04 AM
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MAMED: a pipeline for mapping-based analysis of metagenomic data