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User: Buffo

gravatar for Buffo
Buffo • 1.1k
Reputation:
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2 years, 2 months ago
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c****************@hotmail.com

Posts by Buffo

<prev • 225 results • page 1 of 23 • next >
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Answer: A: Command line blast database
... Just write to call the complete index -db nr ...
written 6 weeks ago by Buffo • 1.1k
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Comment: C: Oxford Nanopore and Illumina hybrid assembly
... You can use old assemblies as trusted contigs (from the same specie and closely related), the use of not highly related genomes are not recomended (in spades), if you dont have access to old assemblies (or it does not exist) de novo and hybrid assemblie is the unique option, and yes, You can use re ...
written 6 weeks ago by Buffo • 1.1k
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Comment: C: Oxford Nanopore and Illumina hybrid assembly
... No, is not the same, you can use 'trusted contigs' for de novo assemblies with spades, but not reads. On the other hand, spades hybrid can perform de novo assemblies from long and short reads :). I from the Congo but I live in America years ago, I know lagartijas XD. ...
written 6 weeks ago by Buffo • 1.1k
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Answer: A: Identification of metabolomic biomarkers
... You can use [MetaboAnalyst][1] to analyze your data, and also to look for biomarkers. [1]: http://www.metaboanalyst.ca/ ...
written 7 weeks ago by Buffo • 1.1k
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Comment: C: How to reorder column vectors in r to use for heatmap.2
... sort(xyz$country) By default it will be sorted from A to Z ...
written 8 weeks ago by Buffo • 1.1k
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Comment: C: Oxford Nanopore and Illumina hybrid assembly
... Nanopore still lacking performance, the ratio cost/performance remains high. I think that PacBio is the best option for long reads and to complete fragmented assemblies (from illumina). Where you from lagartija? I know your name :). ...
written 8 weeks ago by Buffo • 1.1k
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Answer: A: Get orthologous sequences between 2 files containing a set of seq fasta
... You need to use [CD-HIT][1], especifically cd-hit-2d [1]: http://weizhongli-lab.org/cd-hit/ ...
written 8 weeks ago by Buffo • 1.1k
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Comment: C: While generating the % of mapped reads to all miRNAs, do I need to consider uniq
... You will need a higher coverage to validate isomiRs, really higher. ...
written 8 weeks ago by Buffo • 1.1k
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Comment: C: Low mapping percentage after mapping RNA-seq reads to a closely related species
... > use the genome of the organism for a genome guided assembly Guided assembly from RNA-seq? for what?, However, if the mapping percentage to related specie is low, you can perform a de novo assembly (transcripts), predict orfs and blast them to predict functions... etc etc. I think that plot you ...
written 8 weeks ago by Buffo • 1.1k
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Answer: A: Gene enrichment analysis
... Try with [FungiDB][1] it has GO and some others strategies. [1]: http://fungidb.org/fungidb/ ...
written 8 weeks ago by Buffo • 1.1k

Latest awards to Buffo

Popular Question 9 days ago, created a question with more than 1,000 views. For piRNA target-interaction database?
Guru 9 weeks ago, received more than 100 upvotes.
Scholar 12 weeks ago, created an answer that has been accepted. For A: How can I get FASTA if i have Names of proteins ?
Teacher 12 weeks ago, created an answer with at least 3 up-votes. For A: How can I get FASTA if i have Names of proteins ?
Teacher 12 weeks ago, created an answer with at least 3 up-votes. For A: How to convert GTF to gff file for read count using HTSeq
Scholar 3 months ago, created an answer that has been accepted. For A: How can I get FASTA if i have Names of proteins ?
Teacher 3 months ago, created an answer with at least 3 up-votes. For A: How can I get FASTA if i have Names of proteins ?
Popular Question 6 months ago, created a question with more than 1,000 views. For Genomic assembly with spades
Supporter 10 months ago, voted at least 25 times.
Scholar 13 months ago, created an answer that has been accepted. For A: How can I get FASTA if i have Names of proteins ?
Centurion 14 months ago, created 100 posts.
Scholar 17 months ago, created an answer that has been accepted. For A: How can I get FASTA if i have Names of proteins ?
Teacher 17 months ago, created an answer with at least 3 up-votes. For A: How can I get FASTA if i have Names of proteins ?
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