Moderator: Medhat

gravatar for Medhat
Medhat7.6k
Reputation:
7,600
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Trusted
Location:
Poland
Website:
http://combio.pl/
Scholar ID:
Google Scholar Page
Last seen:
11 hours ago
Joined:
5 years, 7 months ago
Email:
m*************@gmail.com

 Computational biology PhD, Software engineer. love programming using Java, Python and R. thrive on challenges and live for breakthroughs (and coffee). working on  data analysis,genome assembly and comparative analysis.  also interested in evolution and mutations and phylogenetics.  Where others say “that’s impossible”,I say “when do I start?” (usually after a cup of coffee).

Posts by Medhat

<prev • 844 results • page 1 of 85 • next >
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Comment: C: make ped file
... Can you give an example how the output should look like? ...
written 1 day ago by Medhat7.6k
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Comment: C: bam to vcf to .bed
... You can convert from bam2bed directly http://bedtools.readthedocs.io/en/latest/content/tools/bamtobed.html Maybe you can elaborate more why you are first convert to vcf? ...
written 3 days ago by Medhat7.6k
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Comment: C: How to start with blast and a local database
... As complementary to the answer, here is a small article regarding the size of rams and building blast db: http://etutorials.org/Misc/blast/Part+IV+Industrial-Strength+BLAST/Chapter+11.+BLAST+Databases/11.2+BLAST+Databases/ ...
written 12 days ago by Medhat7.6k
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Comment: C: How to start with blast and a local database
... Just answering this part: > " is it possible to use a local blast through a browser" Yes you can. here is the tool: https://openwetware.org/wiki/Wwwblast bonus: NCBI workbench but it have more than blast. https://www.ncbi.nlm.nih.gov/tools/gbench/ ...
written 12 days ago by Medhat7.6k
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Comment: C: Inviting NEW Biostars moderators to join Biostars slack channel
... Thanks https://www.biostars.org/u/18713/ :) ...
written 23 days ago by Medhat7.6k
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Comment: C: The errors reported when running snakemake file with log function
... Isn't it enough the double quotes?! as in [documentation][1]: rule all: input: ["{dataset}/file.A.txt".format(dataset=dataset) for dataset in DATASETS] [1]: https://snakemake.readthedocs.io/en/stable/snakefiles/rules.html#targets ...
written 4 weeks ago by Medhat7.6k
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Comment: C: What is Trimmomatic -validatePairs, and how to use it?
... Hi, Please change the post to a question. It is not a job. ...
written 4 weeks ago by Medhat7.6k
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Comment: C: transition to bioinformatics
... https://www.biostars.org/p/111162/#111163 https://www.biostars.org/p/103449/#103452 ...
written 4 weeks ago by Medhat7.6k
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Comment: C: ASAP Paid Virtual Consulting / Tutoring (Basic Bioinformatics / Manipulation of
... If you wish to continue working in Bioinformatics Filed, I encourage you to learn Linux. ...
written 9 weeks ago by Medhat7.6k
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Comment: C: SNPEff not showing SNP
... https://www.biostars.org/p/179963/ SNPEff just annotate the data. So defining if it is SNP or not is based on the variant caller, and SNPEff will annotate the result of the incident. ...
written 11 weeks ago by Medhat7.6k

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