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I'm not sure I really understand the goal of this tool.
From what i ran up to now, i have created a "clean" fastq file of the consensus transcripts from multiple clusters. I don't quite get how i …
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Hi,
I used ./Trinity --seqType fq --left R1.fq.gz --right R2.fq.gz --max_memory 200G --CPU 128 --output ~/result/trinity in trinityrnaseq-v2.14.0 to run my data.
Inchworm showed /home/gcx/bio/tri…
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Greetings @brianjohnhaas,
I recently successfully completed trinity assembly (human breast cancer cell line MDA-MB-231). Using the output trinity .fasta file containing all the de novo transcripts,…
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Hi,
If there are several or many RNA samples, merge fastq files and then mapping and assemble OR mapping and assemble each sample separately?
Best,
Kun
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- de novo assemble nanopore long reads (check if Trinity has a LR option)
- reference-based assemble long reads (does StringTie2 have a LR option?)
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| Name | Description | Size | Format | URL |
| --- | --- | --- | --- | --- |
| World Bank - Light Every Night | Light Every Night - World Bank Nightime Light Data – provides open access to all night…
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I get a KeyError while running pavfinder. Is it something to do with the gtf file format. The file I used was sorted using gff3sort and has "gene_id" and "transcript_id" as it's attributes. I am quite…
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Hello,
I am currently trying to run a phylogeny analysis on 21 proteome files from 21 species. So, I got hyphy from github and was able to go through the cmake process and properly add hyphy to my…
ghost updated
3 years ago
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Does suppa2 apply to pacbio iso-seq ?
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Dear SPAdes team,
I am a bit puzzled about the best practice for the hybrid rnaSPAdes algorithm, when used with PacBio IsoSeq long reads and Illumina short reads.
Form the different spades manua…