RNAseq guidelines reference
hi
Are these guidelines still pretty much the reference out there for RNAseq?
https://genome.ucsc.edu/ENCODE/protocols/dataStandards/ENCODE_RNAseq_Standards_V1.0.pdf
Just interested to know if anything more recent out there...
rna-seq
0 answers
No answers yet.
Log in to answer this question.
More posts like this
-
Chromatin accessibility (Genome Build 37) and feasibility of referencing it to a Genome Build 38
written by adonisgamaliel •Does anyone know if there is a database with information about the Chromatin accessibility using the Assemble Hg38; right now I only know about [these …
-
Creating Heatmaps with cummeRbund
written by rodrigo.nicodemos82 •<p>Hello,</p> <p>I've been trying to create a heatmap of an RNAseq experiment. I've followed the following online tutorial:</p> <p>https://wikis.utexas.edu/display/bioiteam/Visualization+using+CummeRbund</p> <p>However, when I get to creating …
-
why some ENCODE narrowPeak/broadPeak data have no strand information?
written by TriSI'm working with some ChIPSeq data from the ENCODE consortium (i.e. `wgEncodeBroadHistoneK562H3k79me2StdPk.broadPeak.gz`) but there is no strand information. I was reading [this][1] and they say …
-
Extract sequence number "X" from multifasta file
written by user230613<p>Hi there,<br /> I know there are different ways to extract some "wanted" sequences from multifasta file. In general, having one or more IDs, you …
-
Viewing Tf Binding Chip Seq Data From Encode On Igv
written by Varun Gupta<p>Hi Everyone,</p> <p>I am interested in ChIP seq analysis of TF(transcription factors) for Ribosomal Protein Genes for some cell lines(eg A549,GM12872 etc). As a start …
-
Blast Nucleotide Vs. Nucleotide, Plus-Minus Results Only
written by Burlappsack •<p>Hi Folks, <br/> I am interested in running a blastn search to search for complementary sequence (potential biological function) between two groups of sequences, (Query …
-
Centimorgan Values For Snps In Dbsnp132 And Higher?
written by Avariant •<p>Hi all, I am interested in calculating the integrated haplotype score (iHS) for SNPs surrounding a large candidate region of a particular human chromosome. <br …
-
Mediawiki Doesn'T Show Images
written by Stevelor<p>Hi,</p> <p>I installed MediaWiki...nearly everthing works fine, also file uploads. But I have one problem...instead of the pics there are these small icons(broken file symbol) …
-
Counting Repeat And Unique Reads Of Tophat Output
written by Stevelor<p>Hey,</p> <p>I used Tophat for paired-end RNA-Seq mapping and converted the "accepted_hits.bam" to a *.bed file with 82859900 entries/lines -> hits on the reference genome. …
-
Chromosome Position In The Ucsc Phylop46Way.Placental.Wigfix File
written by Abdel •<p>Hi everyone <br/> I downloaded the chr1.phyloP46way.placental.wigFix file from ucsc , i need it to get a phyloP score for a given position of the …
are you looking for a begining tutorial?/Paper/?