-
I have downloaded Possum genome sequence from Broad ("Monodelphis_domestica.monDom5.dna.toplevel.fa") and ran genome preparation command as below:
"bismark_genome_preparation --bowtie2 . " with "fa"…
gbnci updated
6 years ago
-
Here's my understanding of how the lab time would be split up:
**Wednesday**:
Isolate DNA - Use E.Z.N.A. Kit (Omega)
Quantify DNA - Use Qubit dsDNA Kit (Invitrogen/ThermoFisher)
**Thursday**:
…
-
Hi,
I am trying to get the docker pipeline optimised and running quickly.
I assume the docker.config file is causing my CPU settings to be reset to 1. Where can I override this ?
Do I need to j…
-
The Bowtie 2 index of the C->T converted genome seems to be faulty or non-existant ('BS_CT.1.bt2'). Please runthe bismark_genome_preparation before running Bismark
The Bowtie 2 index of the C->T conv…
-
Dear Felix,
I write this issue to ask you if the bam file created with Bismark has the same "universal bam" format As I read in the manual, I think is a little bit different. If not, I would want t…
-
Hi Heng,
I am trying minimap2 on DNA methylation data from whole-genome bisulfite sequence assay. The data processing needs to align reads to only forward or reverse strand of reference genome. Is th…
-
Silly question: would it be feasible to thread samblaster? (i.e., would it be worth my taking a whack at it)
Reason I ask is that it's choking on biscuit (https://github.com/zwdzwd/biscuit) output …
-
Is it just suit for WGBS of single cell ?
-
Hi Jeffrey,
I have MeDIP-seq data(single end, average reads length is 50), but I don't konw the sequencing platform and fragment length in sequencing experiment. I want to know is there any problem…
MinS1 updated
6 years ago
-
Stuff we need:
- TruSeq DNA Methylation Index PCR Primers, 12 indices, 10 rxns per index ($950)
- TruSeq DNA Methylation Kit, 96 reactions ($5405)
- Ampure beads, 5mL ($320)
- Dynamag-2 ($598)
…
kubu4 updated
6 years ago