corset-project

Hi Nadia, thanks so much for the response! I will try to go with your advice and post some updates.

Hi Nadia and Shiye. Ok, so if Supertranscripts is not good for annotation what should I do with my

Dear Nadia, thank you so much for the clarification, and yes, it makes sense totally now (multiple

Kia Ora, I have attached the source code, output, and error file for the corset run. After running

Hi, Was not going to suggest you should assemble a genome :) I think the approach you take depends a

Thanks for sharing your experience for others, and apologies for not seeing this earlier. On

Dear Ting, Sorry for the slow reply. You have a lot of alignments to process for the .bam file, so I

Hi, Corset will cluster the reads into gene group and output two files: one with counts (samples as

Excellent! I'm glad the job succeeded in the end! Happy to help and answer further questions as

Hi Nadia, Thanks so much for your fast reply - I will do that. Thanks, Jodi :) On Tuesday, February

Hi Nadia, Thanks for your incredibly fast response! Your explanation is exactly what I was after.

Hi Naoki, In general each ID is a unique cluster which you can do DGE on. So Cluster-4423.1, Cluster-

Hi Patrick, You could do this if you only want to use the cluster file, but not if you want to use

No worries and not a basic question at all. Yes that's right corset provides raw, unnormalised

UPDATE Hello Nadia, The cosset has finished successfully today, please ignore my message above haha.

Hi Nadia, Thank you for the link it worked fine. Cheers, Mert 6 Eylül 2019 Cuma 23:09:28 UTC+2

Dear Nadia Thanks for the tip. That makes a lot of sense. Now I'm wondering why I didn't

Hello, The "." is perhaps a little confusing here, but indeed the cluster ID corresponds to

Em sexta-feira, 7 de abril de 2017 18:19:39 UTC-3, Giorgio Casaburi escreveu: > On Friday, April 7

On Wednesday, April 29, 2015 at 3:40:05 AM UTC-4, Adam Taranto wrote: > Hi Nadia / Regina, >

Hi Chen, If two transcripts are in the same equivalence class, they will also be in the same super-

Hi Chen Lingyun, You can definitely use superTranscripts to do gene-level differential expression

Hi Hadley, If all your samples are the same species the transcripts should cluster together nicely

Hi Catalina, I would probably try to group by genotype and treatment. Cheers, Madia.

Hi Harris, The likelihood test in corset is very simple as it's performed a large number of times

Hi Chen, 1. The X axis of Figure 4 includes all clusters, not just the "unique" ones.

Hi Xueping Shi, Unfortunately this is not a feature that corset has. Some of the other threads in

Hi Hadley, We usually pool together all sample for the assembly step (so the input is mutiple fastq

Hi Nadia, Thank you very much Chen On Monday, January 29, 2018 at 4:14:41 PM UTC-6, Nadia Davidson

thank you very much On Thursday, January 4, 2018 at 6:30:14 PM UTC-6, Nadia Davidson wrote: Hi, 0 has