User: Medhat

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Medhat6.1k
Reputation:
6,120
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Location:
Poland
Website:
http://combio.pl/
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Google Scholar Page
Last seen:
2 hours ago
Joined:
4 years, 2 months ago
Email:
m*************@gmail.com

 Computational biology PhD student, 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 virus evolution and mutations, phylogeny and reverse vaccines Where others say “that’s impossible”,I say “when do I start?” (usually after a cup of coffee).

Posts by Medhat

<prev • 636 results • page 1 of 64 • next >
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Comment: C: Find Motifs in Genome
... can you see if one of these tools will do what you need? [fuzznuc](http://emboss.sourceforge.net/apps/cvs/emboss/apps/fuzznuc.html) [FIMO](http://meme-suite.org/doc/fimo.html) [HIMER](http://homer.salk.edu/homer/motif/) ...
written 3 days ago by Medhat6.1k
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Comment: C: what is the difference between bioinformatician and Postdoc in Bioinformatics
... So bioinformatician will not have his own research. and the work he/she will help in will not give him publications? ...
written 3 days ago by Medhat6.1k
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Forum: what is the difference between bioinformatician and Postdoc in Bioinformatics
... As the title declares I would like to know the difference specially, some times both jobs demand PhD in bioinformatics and even with experience, other times bioinformatician position asks only for Msc; or you could find a person that already had a postdoc work as a bioinformatician so what is the ...
forum job written 3 days ago by Medhat6.1k • updated 3 days ago by Asaf3.9k
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Comment: C: Transcriptome assembly evaluation with transrate
... can you run ``` transrate --install-deps all ``` or ues ``` transrate --help ``` see If you can install salmon ...
written 12 days ago by Medhat6.1k
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Answer: A: Low-pass whole genome sequencing
... It refers to low-coverage whole-genome sequencing >performed to assess genomic variations such as aneuploidy, where large regions or whole chromosomes can be duplicated or deleted, and benefit from clear and precise data generated in a single-day workflow at an affordable price More can be fou ...
written 14 days ago by Medhat6.1k
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Answer: A: Polishing Reads long or Short
... Polishing is trying to correct the errors/improve genome assembly from the technology used for example > Suppose you have assembled a genome, but suspect it has some minor errors. For example, it might have been assembled from 454 or IonTorrent reads and have homopolymer length errors. The ass ...
written 17 days ago by Medhat6.1k
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Comment: C: Polishing Reads long or Short
... I know assembly polishing and for that there is tools like Pilon or quiver; where did you read the "Polishing Reads" is it just mean trimming? ...
written 17 days ago by Medhat6.1k
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Answer: A: Is De-Bruijn graph only the best approach for assembling short reads from 2nd ge
... De-Bruijn graph used for assembly cause of its speed over overlap layout consensus OLC that means it is not the only way to assembly short reads, regarding length I read a paper about correcting long PacBio reads using de bruijn graph that means that the length could reach to 60,000 bp , what work b ...
written 17 days ago by Medhat6.1k
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Comment: C: Picard MarkDuplicates stuck at Traversing read pair information and detecting du
... Is there is a possibility to increase the memory like ``` -Xmx20g ``` also add tmp directory ``` mkdir mytmp TMP_DIR=`pwd`/mytmp ``` and generally in java you can use ``` -Djava.io.tmpdir=`pwd`/mytmp ``` ...
written 18 days ago by Medhat6.1k
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Comment: C: Extract reads from bam based on start coordinate
... clear now thanks :) ...
written 20 days ago by Medhat6.1k

Latest awards to Medhat

Great Question 3 days ago, created a question with more than 5,000 views. For What tools you use or know for PacBio Long Read error correction?
Prophet 20 days ago, created a post with more than 20 followers. For Will Python Take The Place Of R?
Teacher 4 weeks ago, created an answer with at least 3 up-votes. For A: Big Data Approaches For Bioinformatics
Scholar 5 weeks ago, created an answer that has been accepted. For A: How to find research teams regarding your field
Teacher 5 weeks ago, created an answer with at least 3 up-votes. For A: Big Data Approaches For Bioinformatics
Scholar 5 weeks ago, created an answer that has been accepted. For A: How to find research teams regarding your field
Teacher 5 weeks ago, created an answer with at least 3 up-votes. For A: Big Data Approaches For Bioinformatics
Appreciated 9 weeks ago, created a post with more than 5 votes. For C: Limit Upvotes Over A Certain Amount Of Hours
Commentator 12 weeks ago, created a comment with at least 3 up-votes. For C: Limit Upvotes Over A Certain Amount Of Hours
Scholar 3 months ago, created an answer that has been accepted. For A: How to find research teams regarding your field
Teacher 3 months ago, created an answer with at least 3 up-votes. For A: Big Data Approaches For Bioinformatics
Commentator 3 months ago, created a comment with at least 3 up-votes. For C: Limit Upvotes Over A Certain Amount Of Hours
Scholar 3 months ago, created an answer that has been accepted. For A: How to find research teams regarding your field
Teacher 3 months ago, created an answer with at least 3 up-votes. For A: Big Data Approaches For Bioinformatics
Appreciated 4 months ago, created a post with more than 5 votes. For C: Limit Upvotes Over A Certain Amount Of Hours
Commentator 4 months ago, created a comment with at least 3 up-votes. For C: Limit Upvotes Over A Certain Amount Of Hours
Popular Question 4 months ago, created a question with more than 1,000 views. For Advice For Newcomers To The Bioinformatics Field
Popular Question 4 months ago, created a question with more than 1,000 views. For Advice For Newcomers To The Bioinformatics Field
Appreciated 5 months ago, created a post with more than 5 votes. For C: Limit Upvotes Over A Certain Amount Of Hours
Teacher 5 months ago, created an answer with at least 3 up-votes. For A: Big Data Approaches For Bioinformatics
Prophet 5 months ago, created a post with more than 20 followers. For Advice For Newcomers To The Bioinformatics Field
Popular Question 5 months ago, created a question with more than 1,000 views. For what is your daily must see bioinformatics web site?
Commentator 5 months ago, created a comment with at least 3 up-votes. For C: Limit Upvotes Over A Certain Amount Of Hours
Librarian 5 months ago, created a post with more than 10 bookmarks. For Minimum Standards For Bioinformatics Command Line Tools
Popular Question 5 months ago, created a question with more than 1,000 views. For Minimum Standards For Bioinformatics Command Line Tools

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