Hi everyone,
I am planning a ddRADseq experiment with non-model plants (this means, no reference genome available), and I am wondering how...
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Calculate number of reads per sample for ddRADseq
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Calculate number of reads per sample for ddRADseq
Hi everyone,
I am planning a ddRADseq experiment with non-model plants (this means, no reference genome available), and I am wondering how... -
Pooling libs. for Novaseq. How many reads/coverage?
Hi,
I need to pool 10 multiplexed libraries with different insert sizes (from 245 to 285 bp). Two of the libraries are inputs. The rest... -
Low Exome Coverage with Truseq DNA Exome and NextSeq 500 workflow?
Dear All,
I studied a whole exome with Truseq DNA Exome (2x75 and suitable High output kit) on NextSeq 500.. AFter sequencing I got around... -
Normalization from different NGS runs
Hello community, I would certainly appreciate some help here. Many thanks in advance.
I have been looking around about this subject and everything... -
How to get a report like stuff of a bam file how many percent of the exons are cover
Dear Collegues,
Lets say I have a miseq run and have the .bam file from the squencer and I would like to know how many percent of the exons... -
Protein annotation parameters (query or subject coverage?)
Hi there.
I am annotating some proteins' functions and I a have some doubts about the parameters I should use. I'm using e-value below... -
Subsample regions of too high coverage
Hi all,
Do you think there is an efficient way of downsampling only a few regions of a bam files (in my case the regions with a too high... -
velvetg coverage parameter
Hi everyone, I am new with Velvet and I have some questions regarding velvetg parameters.
I am doing the de novo assembly for my Illumia... -
Low K-mer coverage from a SPAdes assembly
Hi everyone!
I kind of asked the question on my presentation thread, but I think this is a better place to make sure I reach people who... -
No coverage or very low coverage in the Complete Genomics data
Hi,
Has anyone worked on Complete Genomics data? Most of the exons in the data have no coverage or very low coverage (5-10 reads only)... -
BBMap pileup questions
I am interested in metrics that summarise coverage from my BAM file. I came across BBMap pileup which does a decent job. But I have a couple of questions.... -
BBMap pileup questions
I am interested in metrics that summarise coverage from my BAM file. I came across BBMap pileup which does a decent job. But I have a couple of questions.... -
Algebraic operations with genomic occupancy data
Hi all,
What is a proper software to calculate the average between several genomic coverage signals (e.g. several ChIP-seq replicates, with...Last edited by __sequence; 11-24-2017, 07:37 PM. -
Optimal coverage for sequencing microsatellites with Illumina
My lab is planning a phylogeography study on several different groups of lizards using microsatellites. We are interested in pooling the microsatellite...
