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  Hello, I am pretty new to bioinformatics and to this forum, and would very much appreciate any ...
• Bowtie --Very-Sensitive Option
  hiii all, i have a paired end data with each read having 100nt i am using ./bowtie2 -q -D 20 -R ...
• Difference between marking duplicates and filtering BAM on phred score
  Hey! I am working with whole genome sequencing data of bacterial samples and have done an Illumi...
• R: How to test for trend of risk scores
  I have some case/control data like so (many more rows) ID score phenotype 1 0...
• EBSeq explained to a biologist
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• Quality trimming for denovo assembly
  Is quality trimming of raw reads (Illumina Paired End; 2 X 300 bp) for de novo assembly using SPA...
• Samtools Mpileup Snp Calling Improperly Paired Reads
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• Calculating trait disparity between sister species
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• Which Data Format Should I Use To Display My Own Data In Igv
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• Weird Outputs With Dynamictrim And Lengthsort On Custom Settings
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• Using a gene signature to stratify patient samples
  Hi, I have mRNA expression data and through machine learning analysis I identified a gene signat...
• heatmap for rna seq data
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• How to find Standard Error (SE) values when not provided in GWAS summary stats?
  Hi everyone! I'm trying to do a fixed effect meta-analysis on a couple of GWASes based on p-valu...
• samtools view -q 30 filter out most of my reads
  I used the samtools view to filter my alined reads using STAR. But when I set the q-30. most of m...
• Quallity trimming by phred score, how far is to far?
  When quality trimming raw reads to a phred score with many of the numerous tools out there (I pre...
• Transcriptomic Coordinate Bam To Genomic Coordinate Bam
  Hi, I want to ask how to convert the transcriptomic coordinate bam file to genomic coordinate bam...
• How To Calculate Genotype Likelihood Using Quality Scores For Reads
  After google search and reading some articles, I still have no idea how to calculate genotype lik...
• Comparing Quality Of Read 1 And Read2 Of Illumina Pe
  Hello: I have been asked to compare the quality of read one and read 2 of a illumina PE sequencin...
• ESTIMATE (Estimation of STromal and Immune cells in MAlignant Tumor tissues using Expression data)
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