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Under section 5 "Will you be acquiring data using measurement equipment?", there is a sub-section "5.b.1.a.3 Instruments used for data collection".
The section asks for information about instrument…
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This seems to work pretty well with PacBio and Loop full length 16S runs and the full-length trained data. On our local cluster using the QIIME2 output from the pipeline:
```
module load QIIME2/2…
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Hello,
I conducted DEG analysis from Trinity assembly out file (denovo assembly).
And now I had a chance to sequence DNA with pacbio.
Thus, I run a denovo assembly with pacbio and gene predicti…
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`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
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mml@mml:/media/mml/6f60ef75-45fb-4532-9f2a-1a5d642a3093/3C_data/Ctrp_WT$ CreateScaffoldedFasta.pl PacBio_denovo.fasta out
Wed Apr 25 14:14:42 2018: CreateScaffoldedFasta.pl with input fasta = PacBio_…
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Hi，when I tried mecat to assemble PacBio reads. The same problem happened again.
The mecat version which I used is v1.2. And the command is as follows.
```
date
mecat2pw -j 0 -d 00.data/Emu_F_Pac…
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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:…
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Hi @chhylp123,
I have both short reads (Illumina) and long reads (Pacbio HiFi) for parents. Which data do you recommend to use for hifiasm-trio mode? or merge short reads and long reads?
For ya…
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Hi @jason-weirather ,
Thank you for this awesome tool. I want to try it for our PacBio, Illumina, and ONT data. However, I keep on getting the error mentioned in the subject like regardless of my a…
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Hi Alexander,
I want to map gencode.v43.transcripts.fa to GRCh38.primary_assembly.genome.fa, but I failed with STAR and STARlong, and the generated Aligned.out.bam is particularly small, I don't unde…