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intersect two file
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Extract fasta sequences based on ids file
written by marcelolaia •I try the script suggested [here][1], but, it retrieve more fasta that is needed. I have: Exon-file.fa >exon-EucgrC_t009-1 transcript=rna-EucgrC_t009 gene=gene-EucgrC_t009 name=trnE-UUC seq_id=NC_014570.1 type=exon ACTG....ACTG....ACTG.....ACTG.....ACTG >exon-NM_001302717.1-11 …
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'NA's under Gene Names & Gene Symbols : Differential expression Analysis of TCGA data using edgeR
written by fawazfebinHi I was performing a differential expression analysis on TCGA RNA-seq data using edgeR. The results of differential expression analysis has NAs under Gene names …
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written by 2405592MHi Guys, I'm having trouble with some data manipulation. I have the following table where I have the raw counts from an RNA-seq experiment. I'm …
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Adding asterisks to a ggplot2 bar plot to show significance
written by 2405592MHi guys. I'm working with a data set and I've written a for loop that generates barplots for my input tRNA data. I've been able …
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Can gffread extract specific region sequences from vcf or fasta file?
written by MatthewPHello, I have NGS sequencs result(vcf and fasta) file, I download reference sequence([GFF3 format][1]) from NCBI, [this link.](https://www.ncbi.nlm.nih.gov/nuccore/KX254564.1). Here shows a few part of GFF3 …
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Is there a standard yaml file to describe Illumina runs: sample_name, barcode, lane, flowcell?
written by 14134125465346445Is there a format to describe sample names and their associated flowcell(s), lane(s) and barcode(s) from Illumina sequencing experiments? The Illumina documentation describes the following …
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Why do genes have so many synonyms?
written by yliueagleWhy do many genes have several synonyms? Because it was found by different people at different time? How were these genes named? Is there some …
As far as I can tell it appears to signify membership of a gene group. Those names appear to have come from the Genomic tRNA database.