User: agata88

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agata88790
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Poland
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http://bioidea.com.pl/en
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1 day, 7 hours ago
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3 years, 12 months ago
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Posts by agata88

<prev • 347 results • page 1 of 35 • next >
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What tool for compound management?
... Hi all! I am looking for free for academics tool for compound management. Something similar to Mosaic compound management software. I've found MScreen, but it seems to be outdated - I've found only publication. Any suggestions? Best, Agata ...
compound drugs management written 5 weeks ago by agata88790
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Answer: A: How to use GitHub to install assemblers?
... Write in terminal: git clone https://github.com/GATB/minia.git git clone https://github.com/jts/sga.git Then go to cloned directories and follow installation instructions. ...
written 7 weeks ago by agata88790
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Comment: A: Orthology and Pylogenetic Analysis
... How about ClustalO? - https://www.ebi.ac.uk/Tools/msa/clustalo/ ...
written 8 weeks ago by agata88790
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Answer: A: are known polymorphisms in the primer sequence?
... In the meantime I found another solution: 1. Download common SNPs from here: common_all.vcf.gz (https://www.ncbi.nlm.nih.gov/variation/docs/human_variation_vcf/) 2. Define primer coordinates in genome. 3. Run `samtools tabix common_all_vcf.gz chr:START-END` Best, Agata ...
written 4 months ago by agata88790
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Comment: C: are known polymorphisms in the primer sequence?
... Ok I see it, sorry! Thanks for suggestion! Best, Agata ...
written 4 months ago by agata88790
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Comment: C: are known polymorphisms in the primer sequence?
... I run In Silico PCR as you said, but I am not sure how can I concatenate the results with SNP tracks (dbSNP)? ...
written 4 months ago by agata88790
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Comment: C: are known polymorphisms in the primer sequence?
... Thanks! I will try that. ...
written 4 months ago by agata88790
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are known polymorphisms in the primer sequence?
... Hi all! How can I check whether primer sequence include know polymorphisms? I've read about snp blast, but it's seems no longer available: https://www.ncbi.nlm.nih.gov/SNP/snpblastByChr.html Thanks for any suggestions, Best, Agata ...
polymorphisms primer written 4 months ago by agata88790
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Answer: A: Variant calling in large sample populations
... You can try to follow this workflow: 1. Quality trimming - with Trimmomatic (http://www.usadellab.org/cms/?page=trimmomatic) 2. Mapping reads to human genome - with BWA (http://bio-bwa.sourceforge.net/) 3. Variant calling - with SAMtools mpileup (http://samtools.sourceforge.net/) or VarScan (http ...
written 4 months ago by agata88790
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Comment: C: Primer design from bam file ?
... In case you don't want all SNPs, but only the unique for each sample, you can compare consensus linear sequences from 5 samples, and then design primers in desire places. Agata ...
written 8 months ago by agata88790

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Popular Question 8 weeks ago, created a question with more than 1,000 views. For Trimming of 16S reads
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Great Question 4 months ago, created a question with more than 5,000 views. For NCBI nr database
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