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User: Felix Francis

gravatar for Felix Francis
Felix Francis • 440
Reputation:
440
Status:
Trusted
Location:
United States/University of Delaware
Website:
https://sites.google.c...
Twitter:
ffrancis12
Last seen:
9 months, 3 weeks ago
Joined:
3 years, 9 months ago
Email:
f************@gmail.com

Bioinformatics, Systems Biology, Python, R, MySQL

Posts by Felix Francis

<prev • 33 results • page 1 of 4 • next >
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Answer: A: Primer sequences after PCR, Assembly and PCR
... 1) SMRT sequencing of PCR amplicons will yield sequences of both + & - strands (for raw reads as well as for ccs reads). 2) Whether primer sequence in both the strands will be trimmed depends on what approach/tool you are using to do this. Are you trimming the reads based on a fixed length of 7 ...
written 14 months ago by Felix Francis • 440
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Answer: A: PCR Primer Design - Specificity
... Try the PSE module in [ThermoAlign][1]: A primer design tool for tiled amplicon sequencing (includes multiplexing) using highly specific primers. Manuscript: http://www.nature.com/articles/srep44437 https://github.com/drmaize/ThermoAlign [1]: http://www.nature.com/articles/srep44437 ...
written 14 months ago by Felix Francis • 440
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Answer: A: Template-specific primers design
... Try [ThermoAlign][1]: A primer design tool for tiled amplicon sequencing (includes multiplexing) using highly specific primers. Manuscript: http://www.nature.com/articles/srep44437 https://github.com/drmaize/ThermoAlign [1]: http://www.nature.com/articles/srep44437 ...
written 14 months ago by Felix Francis • 440
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Answer: A: Primer Specificity
... Try [ThermoAlign][1]: A primer design tool for tiled amplicon sequencing (includes multiplexing) using highly specific primers. Manuscript: http://www.nature.com/articles/srep44437 https://github.com/drmaize/ThermoAlign [1]: http://www.nature.com/articles/srep44437 ...
written 14 months ago by Felix Francis • 440
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Answer: A: primer design using BLASTn
... [ThermoAlign][1] is a primer design tool for tiled amplicon sequencing (includes multiplexing) using highly specific primers. Number of mismatches from sequence alignments might not be a good proxy for evaluating specificity of primers especially if you are trying to amplify repetitive regions of a ...
written 14 months ago by Felix Francis • 440
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Answer: A: Designing Primers For Multiplex Pcr
... [ThermoAlign][1] is a primer design tool for tiled amplicon sequencing (includes multiplexing) using highly specific primers: **Manuscript:** http://www.nature.com/articles/srep44437 https://github.com/drmaize/ThermoAlign [1]: http://www.nature.com/articles/srep44437 ...
written 14 months ago by Felix Francis • 440
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Answer: A: Designing Primers For Microsatellites In Long Scaffolds
... Here is a primer design tool for tiled amplicon sequencing (includes multiplexing): **Manuscript:** http://www.nature.com/articles/srep44437 https://github.com/drmaize/ThermoAlign ...
written 14 months ago by Felix Francis • 440
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Answer: A: Alignment of genomic data
... **MUMmer**: http://mummer.sourceforge.net/manual/ **LAST**: http://last.cbrc.jp/ **mugsy**: http://mugsy.sourceforge.net/ https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3031037/ ...
written 14 months ago by Felix Francis • 440
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Answer: A: aligner for CORRECTED pacbio long reads
... I would use bwa mem or BLASTn rather than blasr for better specificity. I have had experience with mapping error corrected PacBio reads using blasr and some of the best hits were incorrect. ...
written 16 months ago by Felix Francis • 440
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Answer: A: convert json to gff
... You could use the following json2gff python script: http://pythonhosted.org/mgkit/scripts/json2gff.html usage: json2gff mongodb [-h] [-v | --quiet] [--cite] [--manual] [--version] [input_file] [output_file] ...
written 16 months ago by Felix Francis • 440

Latest awards to Felix Francis

Teacher 14 months ago, created an answer with at least 3 up-votes. For A: NGS reads simulation
Popular Question 16 months ago, created a question with more than 1,000 views. For Ideal coverage required for PacBio error correction using HGAP
Appreciated 2.2 years ago, created a post with more than 5 votes. For A: NGS reads simulation
Good Answer 2.2 years ago, created an answer that was upvoted at least 5 times. For A: NGS reads simulation
Teacher 3.2 years ago, created an answer with at least 3 up-votes. For A: NGS reads simulation
Good Answer 3.3 years ago, created an answer that was upvoted at least 5 times. For A: NGS reads simulation
Appreciated 3.3 years ago, created a post with more than 5 votes. For A: NGS reads simulation
Teacher 3.3 years ago, created an answer with at least 3 up-votes. For A: NGS reads simulation
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