User: Picasa

gravatar for Picasa
Picasa270
Reputation:
270
Status:
Trusted
Location:
Last seen:
17 hours ago
Joined:
1 year, 2 months ago
Email:
p*********@gmail.com

Posts by Picasa

<prev • 200 results • page 1 of 20 • next >
0
votes
1
answer
2.1k
views
1
answers
Comment: C: Rna-Seq Contaminants Assembling Likelihood
... Hi, I like your explanation, do you have papers that describe this possibility of chimeric contigs ? ...
written 19 days ago by Picasa270
0
votes
1
answer
255
views
1
answers
Comment: C: What can I do after my Pacbio genome assembly ?
... Hi Roxane, I was reading this for quiver https://github.com/PacificBiosciences/GenomicConsensus and I would like to know if you have some benchmark using the different algorithm proposed by variantCaller (quiver,arrow,plurality,poa,best). I mean, does it change a lot ? The link above said that ...
written 22 days ago by Picasa270
0
votes
0
answers
135
views
0
answers
Comment: C: Best de novo genome assemblies using only Illumina data ??
... Maybe I was not clear with my question. I am not asking which assembler is the best, but I am looking just for papers with different project that have done a de novo genome assembly and had good results. (like the panda genome) http://www.nature.com/nature/journal/v463/n7279/full/nature08696.htm ...
written 8 weeks ago by Picasa270
1
vote
0
answers
135
views
0
answers
Best de novo genome assemblies using only Illumina data ??
... Hi, I am looking for papers of the best de novo assemblies ever done with (and only) Illumina data for differents kind of organisms (bacteria, insect, mammals, plants etc.) By best I mean accurate, not fragmented (high N50), no contaminations, good completeness scores etc. Do you know any ? Than ...
de novo assembly illumina written 8 weeks ago by Picasa270
0
votes
1
answer
255
views
1
answers
Comment: C: What can I do after my Pacbio genome assembly ?
... I have the sequencing coverage information; but why is it important ? ...
written 10 weeks ago by Picasa270
0
votes
1
answer
255
views
1
answers
Comment: C: What can I do after my Pacbio genome assembly ?
... Hi Roxane and many thanks for your help ! However I don't have .bas/bax.h5 files but only fastq (my raw reads are fastq files) so can I still use pbalign with your command ? I mean, does it recognize fastq ? ...
written 10 weeks ago by Picasa270
6
votes
1
answer
255
views
1
answer
What can I do after my Pacbio genome assembly ?
... Hi I have just assembled my genome with CANU. I am a beginner with Pacbio data and I am wondering now if there is something I can do more ? 1) I heard about Quiver for polishing the assembly: For this I think I need a sam file where my reads have been mapped to my genome. Can I use the mapper blas ...
pacbio written 10 weeks ago by Picasa270 • updated 10 weeks ago by Roxane Boyer220
0
votes
0
answers
107
views
0
answers
Comment: C: Most represented reads in SAM file
... Sorry I forgot to mention that I use BWA with the option -M And yes mapping the same location (because the same reads). ...
written 11 weeks ago by Picasa270
0
votes
0
answers
107
views
0
answers
Comment: C: Most represented reads in SAM file
... Yes same sequences (at 100%). ...
written 11 weeks ago by Picasa270
0
votes
0
answers
107
views
0
answers
Most represented reads in SAM file
... Hi, I am looking for your help. I have a SAM file (with paired reads that I have mapped against a reference) and I would like to extract the paired read which is the most represented (or most abundant). I want to select the paired read the most covered for a particular reference. Is there a tool ...
reads sam representated written 11 weeks ago by Picasa270

Latest awards to Picasa

Popular Question 3 months ago, created a question with more than 1,000 views. For Best strategy for de novo assembly with illumina reads ?
Popular Question 3 months ago, created a question with more than 1,000 views. For Best strategy for de novo assembly with illumina reads ?
Centurion 7 months ago, created 100 posts.
Student 8 months ago, asked a question with at least 3 up-votes. For Best strategy for de novo assembly with illumina reads ?
Supporter 10 months ago, voted at least 25 times.
Scholar 10 months ago, created an answer that has been accepted. For A: 16S Paired-End Illumina MiSeq Data in Qiime
Rising Star 11 months ago, created 50 posts within first three months of joining.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 1423 users visited in the last hour