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• Finding number of duplicates in R
  Hello, I have a list of gene names and several features, each row represents a gene and its speci...
• Detecting Variants from Paralogs gene
  Hi All! I am working on the duplicated genes in Drosophila pseudoobscura. I can found the locat...
• BioPython, PhyloXML and duplication nodes
  Hi, I am parsing some trees from Ensembl's Compara that are in PhyloXML format. Internal nodes wi...
• Can de novo RNA-seq analysis inform us about gene(or genome) duplication ?
  Dear Biostars Friends, Hi *( I'm not native in English so, be ready for some possible language f...
• Weird fragments when aligning PE reads to duplicated genes.
  Hi, I did pair-end ChIP-seq and aligned the reads to Hg19 using Bowtie2. One of the region that I...
• How to handle duplicate SNPs in PLINK?
  Hello, I'm aligning my dataset to a reference panel, and I am finding errors about duplicate SNP...
• Gene Duplication Or Gene Deletion
  After aligning a few proteins obtained from blast search I detected some sequences in the MSA whi...
• Tracing evolution of duplicated genes
  I am working with a duplicated set of genes. The duplicated genes can be divided into three sub-f...
• Parsing PhyloXML to split gene trees at duplication nodes
  Hi, I am new to the PhyloXML format and have a question about parsing files to split gene trees a...
• How To Do Find Clusters Most Correlated With Phenotype?
  Hi all, Maybe it is a simple question, but any help is appreciated. I have a microarray datase...
• How can you find PCR duplicates in ddRAD-seq data?
  PCR duplicates is one of the main bias in RAD-Sequencing and as far as I know they cannot be ide...
• Cog Paralogous And Orthologous Classes
  Dear all, I want to use COG to find the orthologous genes in all bacteria, however I found that...
• Primer design for variants in duplicated genes?
  Hi there, I have whole genome sequencing data I am using to look for novel variants. I have filt...
• Finding paralogs of gene
  Hello all Is there any other way to find paralogs of a gene except Ensembl?? Cheers!
• Gene duplications in Transcriptome
  Hi Biostar, I'm trying to get some differential expression data on some duplicated genes and I'm...
• Remove optical duplicates from bam file
  Hello, After searching in this user group and analyzing the output of picard MarkDuplicates, it ...
• How many genes in RNA seq?
  After running Stringtie/Feature counts the output is expression value of all the genes present in...
• annotation of duplicate reads
  Hi there, I have a lot of duplicate reads in my RNA-seq, which is great from my view. My questio...