User: margab

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margab10
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Posts by margab

<prev • 6 results • page 1 of 1 • next >
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Genome assembly statistical tools
... Does anyone know any tools for calculating assembly statistics such as N50, L50,assembly size, number of contigs/scaffolds and GC%? Thanks in advance! ...
assembly tools statistics written 12 days ago by margab10 • updated 7 days ago by colindaven1.6k
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De novo Genome Annotation without extra data
... I would like some suggestions for which tools or pipelines I can use for de novo genome annotation *without* using transcriptional data (ESTs, RNA-seq, Transcripts, Isoseq), proteins for my organism or hints from proteins of unknown evolutionary distance or other extra data. Genome information: Ma ...
genome annotation written 25 days ago by margab10 • updated 25 days ago by lieven.sterck5.5k
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MaSuRCA, pre-processing and post-assembly improvements
... I'm using MaSuRCA to do a hybrid assembly using Nanopore (MinION) and Illumina (HiSeq X Ten) data. Do you suggest using any pre-processing tool or make any post assembly improvements (ex. polishing and gap closing)? I have read that it doesn't need any pre-processing tool. Thanks in advance!!! ...
genome assembly masurca written 29 days ago by margab10 • updated 29 days ago by Corentin380
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Comment: C: Best Genome Assembler and Genome Annotation tools and pipelines
... I will use the data from the paper you mentioned (DOI 10.1186/s13059-015-0711-4) and try to improve the results of the assembly and the annotation using other tools and pipelines or improved versions of these, if there are any (thats why i didnt mention the SOAPdenovo2). ...
written 4 weeks ago by margab10
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Comment: C: Best Genome Assembler and Genome Annotation tools and pipelines
... My goal is to re-assemble and re-annotate the genome of kiwi from the sequencing data provided by this article: DOI 10.1186/s13059-015-0711-4 I want to use new tools and pipelines in order to increase the efficiency of the assemble and the annotation. In this paper they used Soapdenovo2 and MAKER an ...
written 4 weeks ago by margab10
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Best Genome Assembler and Genome Annotation tools and pipelines
... I want to assemble and annotate the kiwi (bird) genome. **What is the best genome assemble tool and genome annotation pipeline I can use?** We have 11 libraries with several insert sizes from Apteryx mantelli genomic DNA and sequenced 83 billion base pairs (Gb) from small insert-size libraries and ...
genome assembly tools birds annotation written 4 weeks ago by margab10 • updated 4 weeks ago by brian.fristensky80

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