TransDecoder-users

Hi all - I'm cutting back on the number of projects I'm going to support moving forward, and

Hi Brian, I am using TransDecoder on my de novo assembled transcriptome, which has been assembled

Greetings all, a patch release is available: https://github.com/TransDecoder/TransDecoder/releases/

Greetings all, A new release of TransDecoder is now available: https://github.com/TransDecoder/

Hello, I would like to use TransDecoder and would like to keep all the predicted ORFs which are

Hi, Could someone explain to me how the CDS score is claculated by TransDecoder? does it change if we

Hello, I used TransDecoder on usegalaxy and it resulted in 5 output files two of which are longest

Hi, I downloaded varioud transcriptomes from EBI and I am running them trhough TransDecoder and it

Hi Brian, Thank you for your suggestions. I have split my big file into 3 smaller ones and they work

Thank you so much Brian! You were very helpful. Best, Lucila El miércoles, 9 de junio de 2021 a las

Hi Marcus, All the logic for translating according to genetic code is here: https://github.com/

I am trying to convert the longest orf gff3 file (produced by LongOrfs) from transcript coordinates

Hi, the Galaxy wrapper of TransDecoder was updated to the current version 5.5.0 and can be accessed

Hi, I want to update the Galaxy wrapper to 5.5.0 and I have some basic questions. https://github.com/

Hi, In Transdecoder.Predict, there should be a parameter to select just the single 'best' one

Thank you for your help Brian, Best, Alicia El vie., 25 sept. 2020 a las 20:42, Brian Haas (<bhaas

Thank you! It worked! Best wishes, Alexander. El jueves, 20 de agosto de 2020 a las 21:51:59 UTC-3,

I use the annotation software called dammit, which uses Transdecoder. Not sure if this a question for

There could be a frameshift in there. You might load up the sequence into IGV, align the reads to it,

Hi, The gtf_genome_to_cdna_fasta.pl is used to convert genome-based transcript structure annotations

Dear Brian, That makes a lot of sense! Thank you very much for your time and I will follow your

Hi, I think Braker2 should be giving you coding region annotations as it's final output. In this

Hi, It looks like you need to install a perl module: URI::Escape If you have 'cpanm'

Thank you very much Dear Brian. Regards, Neo On Wed 22 May, 2019, 5:17 PM Brian Haas, <bhaas@

it's better to have it on for more accurate start codon prediction. If you have little data or

Dear Brian and TransDecoder users, I am currently trying to use TransDecoder to predict the 3'

Thank you! Best, Tyler On Monday, April 8, 2019 at 4:00:23 PM UTC-7, Brian Haas wrote: Hi Tyler You

Great! Glad it's running now -via googleFi On Thu, Mar 14, 2019, 5:18 PM Fairlie Reese <

Thanks. I will try that to see if I can get it to work. Op dinsdag 19 februari 2019 15:27:52 UTC+1