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User: shuksi1984

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shuksi1984 • 20
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Posts by shuksi1984

<prev • 79 results • page 1 of 8 • next >
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Difference in pipeling designing for data analysis and output files generated by Sequencing by synthesis, Ion Torrent, and Pyrosequencing.
... If I sequence a tissue/blood sample from the same subject (human), how will the outputs from Illumina's Genome analyzer, Roche 454's Genome Sequencer, and Applied Biosystem's SOLiD will differ in terms of accuracy, output file format, and output file size. I only want to know the difference between ...
next-gen sequencing written 4 days ago by shuksi1984 • 20
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Comment: C: Tool to process VCF file
... This is what I got when I tried to download ANNOVAR is freely available only to personal, academic and non-profit use only. Because you entered a .com/.co email address, you are required to purchase a license to ANNOVAR from BIOBASE. A BIOBASE representative will contact you to provide you with ad ...
written 15 days ago by shuksi1984 • 20
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Comment: C: Tool to process VCF file
... Thanks..!! will check with VEP. ...
written 15 days ago by shuksi1984 • 20
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Comment: C: Tool to process VCF file
... > What are you saying? As far as I am aware of, Annovar is free for academic usage I tried to download ANNOVAR from the given link [annovar][1] [1]: http://www.openbioinformatics.org/annovar/annovar_download_form.php ...
written 15 days ago by shuksi1984 • 20
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Tool to process VCF file
... I want to annotate the varianst in VCF. Kindly suggest any freely available tool. I have already tried ANNOVAR, but I need to purchase it. ...
next-gen sequencing written 15 days ago by shuksi1984 • 20
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Comment: C: dummi fastq file for DNAsequencing
... Fastq file that I received was ~2GB each. But I want file size to be in MBs or KBs just for the sake to testing the tools in my application. Also, the fastq file should give some rsids and indels after passing through the pipeline. I used the SP1.fq from the given link [enter link description here][ ...
written 6 weeks ago by shuksi1984 • 20
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dummi fastq file for DNAsequencing
... Can I get dummy fastq paired end human genomic data for DNA sequencing? Let me know any available source. The fastq file size is expected no be more than 1G each. ...
next-gen sequencing written 6 weeks ago by shuksi1984 • 20 • updated 6 weeks ago by Devon Ryan ♦ 82k
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Comment: C: DNAseq pipeline steps
... No, I havent done. This is the 1st time I am doing. > just follow their most updated pipeline that is on their website Can you share the link? ...
written 7 weeks ago by shuksi1984 • 20
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Comment: C: DNAseq pipeline steps
... I want to find out SNPs and indels. ...
written 7 weeks ago by shuksi1984 • 20
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DNAseq pipeline steps
... Following are my DNAseq pipeline steps keeping GATKBestPrac in mind: Step1-Quality check of raw data (fastqc) Step2-Alignment with reference genome(bwa) Step3-SAM to BAM conversion and sorting (SortSam) step4-Generate aligment summary (CollectAlignmentSummaryMetrics, Samtools (depth ...
next-gen alignment written 7 weeks ago by shuksi1984 • 20

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Rising Star 9 weeks ago, created 50 posts within first three months of joining.
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