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• Extraction of batch subject sequence from Blast result.
  $ "~/ncbi-blast-2.5.0+/bin/makeblastdb" -in sub.fna -dbtype nucl -out sub_DB -parse_seqids $ "~/...
• Chip-Seq Analysis: How To Pair Plus And Minus Strand Peaks
  After peak calling with GeneTrack, how to pair plus and minus strand peaks if peaks are on 3' end...
• Methylation, Bisulfite sequencing: Reads, Alignment and Samtools tview
  How to understand the reads of mapped to the minus chain (Crick Chain) in Bisulfite-seq would be ...
• PAR-clip T to C mutations becoming T to G in minus strand?
  I am looking at some PAR-clip data. trimming and mapping went perfectly, however, when i look at ...
• Blastn(Strand= Plus/Minus and Plus/Plus) explication
  Hello, I posted my problem in another site but I have no answer. Maybe you can help me with my pr...
• Plus and minus strands plotted together
  Hi all, I am working on a GRO-Seq data and I want to plot a graph like [one these figures][1], pl...
• SNP Questions: Mendelian Error Rates and SNP Orientation relative to genome.
  Hi everyone,  Could I please ask two questions, both related to SNPs. Question 1: I have .bim/...
• BigWig file of strand-specific RNA-seq data
  Hi all, I began to process strand-specific RNA-seq data from dUTR method library these days. I ad...
• Is there any way to determine whether my sequenced data uses 0- or 1-based coordinates?
  I have bisulfite sequencing data that was aligned and provided in bigwig format. I've since conve...
• How to count positively and negatively aligned reads in a bam file?
  I have a bam file and I would like to count the number of plus and minus strand aligned tothe ref...
• Default strand of mutations
  I have downloaded 10000 SNVs from the COSMIC database. These are all cancer-causing variants. Eac...
• What is the meaning of alignment strand plus/minus in blastn?
  Hi, I am intended to analyze the promoter sequence of my gene of interest (GOI). I extracted the...