Questions tagged [genome-index]
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need bam file for pilon
I just ran an assembly on yeast genomes using Flye and I want to polish those assemblies with Pilon but it requires a sorted BAM file.
How do I make a BAM file of the resulting assembled.fasta?
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How can I bypass 'out of memory' problem using a HISAT2 for human genome indexing?
I am trying to perform a HISAT2 indexing using a GCF_000001405.39_GRCh38.p13_genomic.gtf and ...
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Why index a sequence file with minimap2?
I have been using minimap2 for a few month now and I just found a script that follows these steps:
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Merging/concatenating index files
I was wondering if any one has had success merging pre-generated reference index files for BWA, bowtie2 from multiple references?
For a concrete example I have hg19 and a bunch of viral and ...
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STAR Indexing Diference for Small and Large Genome File Output
I have a quick doubt on the output of the Genome Indexing, I have used the STAR program along with genome .fasta file and GFF file.
Genome size is 3GB, here is the file output
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Why is my STAR reference genome indexing aborting on my GNU/Linux server but not on my Mac OS X laptop?
I am running the following command to index my genome:
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Can I index a compressed FASTA file using STAR?
I am using STAR to align RNA-seq reads to a reference genome. Before the alignment, I need to generate an index of the reference genome. I use the following code to generate the index successfully:
<...
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