User: Moss

gravatar for Moss
Moss20
Reputation:
20
Status:
New User
Location:
Cleveland, OH
Website:
http://www.biology.cas...
Last seen:
3 years, 9 months ago
Joined:
8 years, 5 months ago
Email:
t************@gmail.com

PhD student in Biology trying to analyze genomic and transcriptomic data using Bioinformatics

Posts by Moss

<prev • 7 results • page 1 of 1 • next >
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Answer: A: assembly of large Genome(tool)
... The best assembler I've been exposed to is the the one developed by NRGene on maize. They specialize in the complex plant genomes while most other assemblers were developed to be used on human or animal systems. Here's one of the press releases on their work in maize: http://www.bigdatanews.com/gro ...
written 3.7 years ago by Moss20
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Comment: C: Bioinformatics Scientist - Intermountain Healthcare Cancer Genomics, Utah
... Is it common for bioinformaticians to be responsible for machine maintenance? ...
written 4.5 years ago by Moss20
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Comment: A: Tool Recommendation Wanted For Cleaning Fasta/Fastq Files To Remove Unpaired Rea
... Thanks dpryan79, in the end I decided that I could concatenate the collapsed files and map them as though they were single reads. This will work for just looking at coverage of a closely related genome, but wouldn't work for any solid, in-depth analysis. Since I am just double checking the sequencin ...
written 5.4 years ago by Moss20
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Tool Recommendation Wanted For Cleaning Fasta/Fastq Files To Remove Unpaired Reads Following Pre-Processing
... Hi Everyone, I've been digging around the web trying to find a tool that would allow me to clean-up my paired-end Illumina data before mapping. My pipeline thus far has been to: 1) FASTQC - my R1 file had a bit of adaptor contamination, the R2 file was fine. 2) fastx_collapser - I had a lot of data ...
paired-end written 5.4 years ago by Moss20 • updated 4.6 years ago by Biomonika (Noolean)3.0k
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Comment: C: New Fasta Sequence From Reference Fasta And Variant Calls File?
... New link: http://www.broadinstitute.org/gatk/gatkdocs/org_broadinstitute_sting_gatk_walkers_fasta_FastaAlternateReference.html ...
written 6.5 years ago by Moss20
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Comment: C: Extracting An Up Stream Or Downstream Sequence From Given Position
... I'm running ubuntu and am having trouble running pyfasta... any suggestions? I am unfamiliar with python, so I am not sure how to "make" "install". ...
written 8.5 years ago by Moss20
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Comment: C: Extracting An Up Stream Or Downstream Sequence From Given Position
... I am working a similar project. Please message me if you still need help. I'm a student at CWRU - Biology Dept. ...
written 8.5 years ago by Moss20

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