Hello,
I am trying to assemble a genome (estimated at ~28mb) and I have the following types of sequencing data:
454 reads (~3 million reads)
Illumina Single End 50 bp (~45 million reads )
Illumina Paired End 50 bp 2kb insert (~40 millions pairs)
Illumina Single end RNA-seq (multiple conditions pooled) (~50 million reads)
I am looking for assembly software that can take in the multiple different data types and create a single assembled genome. Previously it has been done using different assemblers for each data type and then merging assemblies--however I imagine that a single assembler which is given the different sequencing datasets at one time would produce a better assembly than simply merging the assemblies together.
If this doesn't exist, or is discussed in another thread then please point me in the right direction.
Cheers,
Phil
I am trying to assemble a genome (estimated at ~28mb) and I have the following types of sequencing data:
454 reads (~3 million reads)
Illumina Single End 50 bp (~45 million reads )
Illumina Paired End 50 bp 2kb insert (~40 millions pairs)
Illumina Single end RNA-seq (multiple conditions pooled) (~50 million reads)
I am looking for assembly software that can take in the multiple different data types and create a single assembled genome. Previously it has been done using different assemblers for each data type and then merging assemblies--however I imagine that a single assembler which is given the different sequencing datasets at one time would produce a better assembly than simply merging the assemblies together.
If this doesn't exist, or is discussed in another thread then please point me in the right direction.
Cheers,
Phil
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