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Hi Felix,
This is follow-up of my previous [question](https://github.com/FelixKrueger/Bismark/issues/344) about absence of methylation call in ambig_bam output.
So I was so interested in analyzing…
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Hello I am new to Bismark, I am encountering a problem. please see below:
The IDs of Read 1 (#!/usr/bin/env perl
) and Read 2 (use warnings;
) are not the same. This might be the result of sortin…
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Make sure the command:
fastq_screen --bisulfite --get_genome
is explained in all the documentation.
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I used the V. 3.3.0 version of deeptools (command line, installed from bioconda).
I have Whole Genome Bisulfite data. I run `computeMatrix scale-regions -S ` for each file. I specify I didn't used …
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Hello, teacher, I hope to find 6mA from the original FAST5 file. How should I set up my training set?
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Currently, there seems to be a discrepancy in the counting of ambiguously mappable sequences between the default mode, and the `--bisulfite` mode. Here is an example of a human RRBS sample which was a…
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To avoid having to run FastQ Screen on trimmed FastQ files in `--bisulfite` mode, could you please allow Bismark to be run using local alignments (flag: `--local`), similar to what you are doing alrea…
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Hello,
Thank you for this new release of Megalodon. I've been doing some testing and I have 2 issues with it so far:
1) The read-processing performance went from ~**28** reads/s (Megalodon 2.1 w…
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Cheers Felix! I think the problem was that we had two genomes in our genome folder within our server.
Bismark completed genome preparation and bisulfite conversion. I now however have a new problem …
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Hi @dpryan79
First, I have no idea why I cannot re-open my previous issue so I'm writing problem here.
(I'm sorry for that)
As you suggested in closed issue #95(https://github.com/dpryan79/Met…
tahuh updated
3 years ago