User: Medhat

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Medhat6.2k
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Location:
Poland
Website:
http://combio.pl/
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Last seen:
14 hours ago
Joined:
4 years, 4 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 • 652 results • page 1 of 66 • next >
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Comment: C: RNA-Seq Sample Question
... What Is the difference between those two samples? are they different conditions ? ...
written 2 days ago by Medhat6.2k
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Comment: C: Bash script error on reading coordinates in a file
... As you can see it is the same error, try to put your code line between `` like: ``` `cat $file | tr 'A' ' ' | awk '/ATOM/ && $3 == "CA" && $4 == "GLU" && $5 == $pos {print $6}'` ``` > The backtick (``) is actually called command substitution. The purpose of command subst ...
written 7 days ago by Medhat6.2k
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Comment: C: How to create/get cytoband file for Maize (non-model organism) genome
... the new version had a lot of upgrades I do not think lifting over is a good solution , besides I tried to lift over a vcf file and it did not work well ...
written 17 days ago by Medhat6.2k
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Comment: C: How to create/get cytoband file for Maize (non-model organism) genome
... I tried release 33 but it is empty file ...
written 17 days ago by Medhat6.2k
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Comment: C: What can I do after my Pacbio genome assembly ?
... If he needs bam file I think he can use ``` bwa mem -x pacbio ref.fa reads.fq | samtools view -F 4 -Sbh - | samtools sort - my_result_sorted.bam``` instead of blasr ...
written 17 days ago by Medhat6.2k
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How to create/get cytoband file for Maize (non-model organism) genome
... Hi, How to create/get cytoband file that I can use with IGV to create .genome file ...
sequencing written 17 days ago by Medhat6.2k • updated 17 days ago by microfuge450
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Comment: C: what I am interested more?
... so now you have the first part that you will use public data (what kind of public data? or you will use different kinds like RNA-seq and WGS etc ...). second part is : to answer what question in evolution? So your homework to find an interesting question for you (which not easy task) ...
written 21 days ago by Medhat6.2k
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Comment: C: gVCF questions with "0" in the Alt field
... I think > Sites inside of heterozygous deletions are altered to have haploid genotype entries (e.g. "0" instead of "0/0", "1" instead of "1/1"). [more](https://help.basespace.illumina.com/articles/descriptive/gvcf-files/) ...
written 21 days ago by Medhat6.2k
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Comment: C: what I am interested more?
... > I liked a search in genomic analysis related to evolutionary genomics So this is the first thing you like genomic analysis ; and all the above tools is just tools to help in genomic analysis , let us change the question to what you can do more work in RNA-seq or microaaray or software developm ...
written 21 days ago by Medhat6.2k
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Comment: C: fasta seq header
... I think this ``` awk '/^>/ {printf("\n%s\n",$0);next; } { printf("%s",$0);} END {printf("\n");}' < file.fa ``` ...
written 24 days ago by Medhat6.2k

Latest awards to Medhat

Popular Question 8 days ago, created a question with more than 1,000 views. For Interactive Web To Learn R
Popular Question 16 days ago, created a question with more than 1,000 views. For Interactive Web To Learn R
Popular Question 18 days ago, created a question with more than 1,000 views. For Interactive Web To Learn R
Scholar 24 days ago, created an answer that has been accepted. For A: How to find research teams regarding your field
Great Question 25 days ago, created a question with more than 5,000 views. For What tools you use or know for PacBio Long Read error correction?
Great Question 5 weeks ago, created a question with more than 5,000 views. For What tools you use or know for PacBio Long Read error correction?
Prophet 7 weeks ago, created a post with more than 20 followers. For Will Python Take The Place Of R?
Teacher 9 weeks ago, created an answer with at least 3 up-votes. For A: Big Data Approaches For Bioinformatics
Scholar 9 weeks ago, created an answer that has been accepted. For A: How to find research teams regarding your field
Teacher 10 weeks ago, created an answer with at least 3 up-votes. For A: Big Data Approaches For Bioinformatics
Scholar 10 weeks ago, created an answer that has been accepted. For A: How to find research teams regarding your field
Teacher 10 weeks ago, created an answer with at least 3 up-votes. For A: Big Data Approaches For Bioinformatics
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Popular Question 5 months ago, created a question with more than 1,000 views. For Advice For Newcomers To The Bioinformatics Field
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