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Comment: STAR Genome indexing (Homo_sapiens_assembly38.fasta vs. GRCh38.primary_assembly.
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> So I changed a fasta file
In what way? Did you download a new copy? Perhaps your original was corrupt. Are they the same size?
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Each sample belongs to a person. Mapping percentage of sample 14,15 and 16 are under the 50%. They are really bad for me, especially sample…
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thanks alot
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Please use the formatting bar (especially the `code` option) to present your post better. I've done it for you this time. <br />
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Comment: STAR Genome indexing (Homo_sapiens_assembly38.fasta vs. GRCh38.primary_assembly.
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I've never used `tablemaker` before, but their [github repo](https://github.com/leekgroup/tablemaker) states that its purpose is to follow …
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Please use the code formatting for future posts/replies (the button with 101101, next to the one for including images). I've done it for yo…
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>My mapping results are terrible.
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Download Split VCF Tool to break large-sized VCF Contacts. Split VCF Software allows users to break any large-sized VCF files into small VC…
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That makes sense, thanks!
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No, i have FASTA files. As i understood, these files have contigs in them. And one file has scaffolds. I guess that means that they did ass…
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Also for non-R solutions:
https://www.biostars.org/p/49820/
Answer: How to extract specific samples (by ID) from Fasta file to new fasta file in R
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#/ In R using Biostrings:
library(Biostrings)
fa <- readDNAStringSet("~/foo.fa")
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Are you sure they are FAST**A** files and not FAST**Q** files?
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Thank you for the reply!
Its not RNA-seq, we are sequencing viral DNA.
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