User: das2000sidd

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das2000sidd30
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Posts by das2000sidd

<prev • 7 results • page 1 of 1 • next >
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disproportinate fastq sizes from bcl2fastq
... Hi Everyone While demultiplexing fastq files and for some reason for one of our sequencing runs, one set of fastq run on 4 different lanes of Illumina nextseq for a particular sample is generating fastq in the range of 2 .5 to 3 gb while the remaining 15 samples have fastq in the range of 100 to 20 ...
next-gen bcl2fastq rna-seq written 12 days ago by das2000sidd30 • updated 12 days ago by swbarnes25.3k
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Knowledge of prospects post MSc Bioinformatics and bioinformatics at Katholieke University Leuven
... Hi everyone I am about to start a second MSc in bioinformatics at the Katholieke University Leuven in Belgium in less than a month. I have previously had a bachelors in biotechnology from India and MS in human genetics from US. I got interested in computational biology while working on my master's ...
bioinformatics msc written 2.6 years ago by das2000sidd30 • updated 2.6 years ago by John12k
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Forum: MSc bioinformatics at KU Leuven
... Hi does anyone have any knowledge about how is the Master of Science program in bioinformatics at KU Leuven? The program started in 2006-2007 and is two years long. So I am assuming there have been several graduates. I wanted to know if any who have gone on to work in the industry and not go for PhD ...
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Answer: A: EPACTS association analysis
... Merge them using vcf merge in one vcf file. Before merging, sort them, compress them using bgzip and then tabix them to get the index file. After that you should be good to go. ...
written 2.8 years ago by das2000sidd30
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Comment: C: Extracting Gene Names From Vcf File
... Use vcftools --get-INFO option. So your script would be: ./vcftools --vcf your_vcf_file.vcf --get-INFO txGn --out vcf_file_gene_name_info ...
written 2.9 years ago by das2000sidd30
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Comment: C: Extract specific genes from VCF file?
... Use vcftools. Check here: http://vcftools.sourceforge.net/man_latest.html There is an option --bed where you you take columns 3,4,5 above in a simple tab delimited file without any quotes and the header name chrom, chromStart and chromEnd and it will pull out only variants within those bed file reg ...
written 2.9 years ago by das2000sidd30
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Is 1000 genomes data good enough to use for PCA?
... Hi I am trying to use the thousand genomes data snp data along with common snps from my exome sequencing project to perform principal component analysis (PCA). I have generated a combined PLINK binary file of my data and the snp data from the thousand genomes data. Then I am using the R package SNPR ...
next-gen sequencing written 2.9 years ago by das2000sidd30 • updated 2.9 years ago by genomax65k

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Popular Question 2.5 years ago, created a question with more than 1,000 views. For Is 1000 genomes data good enough to use for PCA?

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