User: hrenchert747

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hrenchert74750
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Posts by hrenchert747

<prev • 14 results • page 1 of 2 • next >
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Comment: C: What to choose for the custom WGS bacterial data processing pipeline: KNIME or G
... thx, yes I am able to run command line codes and surely can write some R, Python, PHP, Java, Ruby, JS, SQL and I have forgotten Assemb. and C/C++ since the old days of my studies...what is Snakemake? ...
written 2.7 years ago by hrenchert74750
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Answer: A: Is there any good GWAS software for the whole bacterial genomes?
... I found GWAMAR and eCAMBER, if you know a better choice, let me know, pls ...
written 2.7 years ago by hrenchert74750
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Is there any good GWAS software for the whole bacterial genomes?
... Is there any good GWAS software for the whole bacterial genomes? Input should be sam/bams, annotations, vcfs, in other words --- the outputs of alignment and variant calling and information belonging to the host (drug resistance status, clinical and laboratory parameters). Thx. ...
gwas written 2.8 years ago by hrenchert74750
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What to choose for the custom WGS bacterial data processing pipeline: KNIME or Galaxy or smth else?
... What to choose for the custom WGS bacterial data processing pipeline: KNIME or Galaxy or smth else? Maybe to write a backend bash script to call BBmap, GATK and BedTools and things like that is a better way? What is your expert opinion and experience? Thx. ...
knime next-gen galaxy pipeline wgs written 2.8 years ago by hrenchert74750
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Are there any software for the alignment-free bacterial whole genome sequence similarity search and comparison?
... Are there any working software (s) for the alignment-free bacterial whole genome sequence similarity search and comparison? Thx. ...
vcf wgs alignment similarity sequencing written 2.8 years ago by hrenchert74750 • updated 2.8 years ago by kloetzl1.0k
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Comment: C: is there any software designed for the VCF file similarity search?
... Thx, what functions to use and could you show a case example of data processing? ...
written 2.8 years ago by hrenchert74750
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Comment: C: Illumina microarray dataset analysis
... best w., it surely works, you can also try Cytoscape with plugins for networks from microarrays, pay attention to the proper data input, all other things are to push buttons there ...
written 2.8 years ago by hrenchert74750
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is there any software designed for the VCF file similarity search?
... Is there any software designed for the VCF file similarity search? Or the software for WGS similarity search using .bam/.sam and fastq files? ...
vcf wgs written 2.8 years ago by hrenchert74750 • updated 2.8 years ago by harold.smith.tarheel4.3k
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Answer: A: Illumina microarray dataset analysis
... I did it using Expander software and MeV, you can also try JMP Genomics and Biocinductor R if able to program somehow. ...
written 2.8 years ago by hrenchert74750
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What open source short read aligner is the best for the WGS bacterial alignment as a backend of web service?
... What open source short read aligner is the best for the WGS bacterial alignment as a backend of web service? Tried BBmap, not bad. Are there any faster and better? ...
wgs alignment written 2.8 years ago by hrenchert74750

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