PacBio transcriptome and gene annotation
I have:
1) well assembled PacBio only genome with related organism with well annotated genes
2) Illumina transcriptome
3) PacBio transcriptome
4) Not so good as expected genes annotation with Maker and Illumina transcriptome
Do you try use PacBio transcriptome for gene annotation with Maker or any other tools?
I'm going to try following approaches:
1) Maker + PacBio transcriptome as is
2) GeneMakerS-T with PacBio transcriptome to get genes model
Any other ideas or hints?
0 answers
No answers yet.
Log in to answer this question.
More posts like this
-
Isoforms and Transcriptome assembly with direct RNA Nanopore reads
written by mariana.villegas •
-
How do I extract predicted genes from annotation from MAKER-P?
written by eennadi •
-
Checking for gene expression in transcriptome - 1 sample RNASeq
written by Susan •
-
How to handle mis-annotated chimeric genes?
written by liorglic
-
PacBio long-reads impact in transcriptome de novo assembly
written by Manuel Mendoza •
-
de novo hybrid assembly of transcriptome - Illumina PE and PacBio Full-length reads
written by Bade •
-
Is there any tool to do GO, EC, and KEGG annotation for transcriptome assembly?
written by seta
-
How to add blastx hit name to the related contigs of assembly?
written by sohra •
-
GFF3 file -- making graphs and getting annotations
written by st.ph.n
-
Calculating Ds/Dn Ratio Through Contig Snp Annotation
written by jackuser1979
I am curious, what is the difference in number of assembled transcripts when comparing pacbio to illumina? Can you get at least 1 pacbio read for every illumina build transcript?