User: Roxane Boyer

gravatar for Roxane Boyer
Roxane Boyer450
Reputation:
450
Status:
Trusted
Location:
France/Marseille/IBDM
Last seen:
44 minutes ago
Joined:
1 year, 6 months ago
Email:
r*************@gmail.com

Posts by Roxane Boyer

<prev • 157 results • page 1 of 16 • next >
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Comment: C: Polish PacBio assembly with latest PacBio tools : an affordable solution for eve
... Hello ! Well, I never did such a thing yet, I don't have any idea of how to do it, I'm sorry. ...
written 11 days ago by Roxane Boyer450
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Breakdancer : bam2cfg.pl doesn't work with merged bam
... Hello everyone ! I'm trying to test out Breakdancer, a tool to detect strucural variantion in a alignement ,that first require to run a perl tool which create a config file using your bam file. I used the tool this way on a merged bam : Loutre:~/breakdancer/perl$ ./bam2cfg.pl '/media/loutre/ ...
breakdancer written 12 days ago by Roxane Boyer450
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Comment: C: Maker failure on almost all contig
... It appears that one of my gff was in fact a gtf... Probably I mistake I made while using stringtie output. Problem solved now. Than you for your help ! ...
written 11 weeks ago by Roxane Boyer450
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Comment: C: Maker failure on almost all contig
... Hm your guess was right. Deactivating augustus did not changed theses errors. I got exactly the same message. I guess something is wrong with one of my input files. ...
written 11 weeks ago by Roxane Boyer450
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Comment: C: Maker failure on almost all contig
... As you adviced me in a previous post, I specified it using augustus_species=fly. I downloaded a fly data set of augustus on thei website, so the set is already trained and ready. It didnt showed off any errors concerning augustus. ...
written 11 weeks ago by Roxane Boyer450
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Comment: C: Maker failure on almost all contig
... Yes I'm pretty sure, there is no redundancy. It's the same file I've worked with since the begining. I used it for maker without Augustus. And it was working just fine before. Adding augustus input in the only thing I changed ...
written 11 weeks ago by Roxane Boyer450
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Comment: C: Maker failure on almost all contig
... You have an example of name just right above here : Andromeda. Here some others example of contig names that failed : Draco, Cepheus, Gemini, Contig_5, etc... Some contigs (a few) succeeded to be annotated. For example Contig_534 etc... Only small contigs. ...
written 11 weeks ago by Roxane Boyer450
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Maker failure on almost all contig
... Hello everyone, I'm using maker since a while now, and I never got any issues about it. I recently tried to include some Augustus prediction inside the annotation process by changing the line : `augustus_species=fly` as it was specified in some maker tutorial. At the end of the process, only a doz ...
software error annotation maker written 11 weeks ago by Roxane Boyer450
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Comment: C: Polish PacBio assembly with latest PacBio tools : an affordable solution for eve
... Dear Zusman, > If i am not mistaken, bas.h5 file only contains the quality > information for the reads. So, for analysis we require .bax.h5 files. > Also each .bax.h5 files correspond to different sample. Everything you said is correct so far. > Also each .bax.h5 files correspond to d ...
written 3 months ago by Roxane Boyer450
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Comment: C: Polish PacBio assembly with latest PacBio tools : an affordable solution for eve
... Hi Kyungyong ! So I'm not really used to PacBio dataset with adaptaters, but I saw an option in the bam2bam tools from pacbio that allow to specify adaptaters and barcodes sequence. Maybe it allow a kind of filter to put apart adapaters form the output bam ? Here is the SMRT Tools Guide that may ...
written 3 months ago by Roxane Boyer450

Latest awards to Roxane Boyer

Popular Question 5 weeks ago, created a question with more than 1,000 views. For First time using maker
Popular Question 6 weeks ago, created a question with more than 1,000 views. For First time using maker
Popular Question 12 weeks ago, created a question with more than 1,000 views. For First time using maker
Teacher 3 months ago, created an answer with at least 3 up-votes. For A: What can I do after my Pacbio genome assembly ?
Popular Question 3 months ago, created a question with more than 1,000 views. For First time using maker
Popular Question 3 months ago, created a question with more than 1,000 views. For Training Augustus for Maker
Appreciated 3 months ago, created a post with more than 5 votes. For A: What can I do after my Pacbio genome assembly ?
Scholar 3 months ago, created an answer that has been accepted. For A: Trouble with Pilon installation
Good Answer 5 months ago, created an answer that was upvoted at least 5 times. For A: What can I do after my Pacbio genome assembly ?
Popular Question 9 months ago, created a question with more than 1,000 views. For Training Augustus for Maker
Appreciated 10 months ago, created a post with more than 5 votes. For A: What can I do after my Pacbio genome assembly ?
Teacher 10 months ago, created an answer with at least 3 up-votes. For A: What can I do after my Pacbio genome assembly ?
Centurion 10 months ago, created 100 posts.
Scholar 12 months ago, created an answer that has been accepted. For A: Trouble with Pilon installation
Rising Star 17 months ago, created 50 posts within first three months of joining.
Supporter 17 months ago, voted at least 25 times.

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