-
Hi ,
I would like to quantify the TE expression from pacbio iso-seq . I directly using minimap2 bam file to run TElocal using `--mode uniq`, but the ouput file all zero count. I would like to know it…
-
Hi, Is there any way to do this? This would be simpler than converting PacBio BAM files to fastq, and then somehow integrating the info from the original PacBio BAM file with the mapped BAM file.
A…
gevro updated
4 years ago
-
Please can I use this package on any of Pacbio or EM_seq-based methylation data?
-
Hi,
I use minimap2(2.17-r974-dirty or 2.17-r941) to map pacbio data to fasta. It works well at the beginning, and then got this error as below:
`[M::worker_pipeline::8353.332*54.76] mapped 18539 seq…
-
For some workflows, you may already have unmapped BAMs when you're ready to use splitcode and it would be helpful if you weren't required to convert them back to FASTQs.
As a specific example, PacB…
-
Hi,
When I tried to run [PolyAtailor](https://github.com/BMILAB/PolyAtailor), PolyAtailor_on_mouse_PACBIO_data.Rmd file, I met the following problem:
p
-
`chr20 21980692 Minda_85 N . PASS SVLEN=44392;SVTYPE=DEL;SUPP_VEC=PB_r_232,ONT_r_146,ILL_MantaDEL:2967:0:1:0:0:0,PB_severus_DEL4084,PB_ID_36398_2,ONT_severus_DEL4635,ILL_gridss273fb_9169h,ONT_ID_2463…
jzook updated
1 month ago
-
Hi,
@pb-jlandolin
I download some test data from the ncbi, as the sra-tools do not provide a "pacbio-dump" like fastq-dump or illumina-dump, I used the commod "fastq-dump --table SEQUENCE *.sra" . But…
-
I am working on an assembly for an expected genome size of 2.65Gbp. We have HiC data, and 6 SMRTCells worth of HIFI data (3 from a male, and 3 from a female).
Initially, I tried the assembly at t…
-
Dear PBSIM3 maintainers,
I am YU Zhejian from the Zhejiang University-University of Edinburgh Institute. Our group has been using PBSIM1/2/3 to simulate long-read RNA-Seq reads (with [YASIM](https:…