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I have few transcriptome data sets. I ran trinity on each of them. Found differential Expression.
Now My confusion is can we directly match an ID from two different trinity Runs. For eg Say some gene…
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Before we make the next release of Tripal v3, I would like to specify which content types we should have available by default. With Tripal v2 each content type required a new module, but for Tv3 ad…
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i use trinity(v2.5.1) to assembly transctipts, but assemble too many unigenes, and alignment ratio is so low.
my command as below:
`Trinity --seqType fq --max_memory 10G --CPU 5 --min_contig_length …
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I have installed and successfully run the test. I am now trying to use 'tracer build' to create a new resource for my organism of choice (Btau). However, I keep getting the error I keep getting the er…
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Hello,
There is a small bug to correct in the "check_dependencies.py" and "fungap.py" files:
"args.maker" should be "args.with_maker"
cheers
Robin
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hi ,
I am trying to use abundance_estimate_to_matrix.pl script to form a matrix but i am getting this error .
CAN YOU PLEASE HELP ME.
./util/abundance_estimates_to_matrix.pl --est_method kallis…
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Knew this gene from an intermediate de novo transcriptome assembly. Can see it in the genome, but seems like none of the RNA-Seq evidence captured in properly. May be a pseudogene.
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Dear Brian
I get the trinity fasta file after assembly. Then, I should remove rRNA using SILVA before run Bowtie, RSEM and edgeR?
Do you have some recommendation for this step?
Thank you
Kan
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Hi,
I used stringtie to perform de novo transcriptome assembly for a non-model organism. I found that in some cases, identical gene_ids were given for separated transcripts:
For example (exon ro…
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## **For the latest pre-release version, 2.6.2, In the top source directory after decompressing I issued:**
make
.
.
.
make[1]: Leaving directory `Programs/trinityrnaseq-2.6.2-prerelease/trinit…