-
Hi @chapmanb .
There was a nice GA4GH BAM/VCF compression workshop yesterday. See here for the slides.
https://drive.google.com/drive/folders/1bQcgqPn_BAYNGlyCVrX_IRLDvYbQjf8t
I am wondering …
-
Hi,
Hifiasm does a wonderful job of partitioning our focal locus into two clean haplotypes in most of our trio sets. However, there's some unexpected behaviour in one trio set: The hap1 assembly co…
-
-
Hi @lh3
I have noticed some weird insert sizes generated by bwa mem (default settings) followed by samtools sort and stats, when I map my 2x150bp Illumina metagenome reads against the megahit assemb…
-
Hi,
Would you guys be open to reviewing the bam to cram conversion in bcbio?
Currently, this is done using either samtools or bam-squeeze.
I propose replacing both with [scramble](https://github.…
-
Hi there,
I'd like to propose to add [Unicycler](https://github.com/rrwick/Unicycler), which is also used in nf-core/bacass, and is rather specialized on single genomes but is also used successfull…
-
```
STUDY SRP189971_1586f07841cbf8f05e203684ee3b981b - this is an alias for the study
SAMPLE SRS4558644 - ENA sample number
RUN_REF SRR8822472 - ENA run number
ASSEMBLYNAME SRR8822472_964d7e…
-
Hello Ben,
When I run coverm roughly following default settings I end up with half the abundances of coverm when I provide the bam file and --genome-definitions flag:
Default-ish setting:
```
…
-
Hi Sergey,
I am trying to assemble these different HiFi libraries (https://www.ncbi.nlm.nih.gov/sra/?term=pacbio+HiFi+A4+X+ISO1) from A4 X ISO1 F1 females (drosophila).
We had some illumina dat…
-
Hi!
I'm planning to assemble a plant genome of about 500Mb in size. We have the parental data for same sequenced on HiSeq 2500 at roughly 35x. The PacBio data is upto 70x.
My doubt is, how do I …