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Results tagged with ngs
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user 16676
use for general applications of high-throughput nucleotide sequencing methods that use short-read technology (e.g. Illumina, IonTorrent). For long-read sequencing, use 'long-read', or a more specific tag if applicable (e.g. nanopore, pacbio).
2
votes
Issues with adapter trimming (Trim Galore)
Ignore the overrepresented sequences. The counts for these that you show is so low (10, 11) that it is irrelevant.
Ignore per-base sequence content. This in RNA-seq is known to be a bit messed up si …
- 1,511
5
votes
Accepted
Estimate insert size for single-end data with picard CollectInsertSizeMetrics
Most NGS types have a relatively standard insert size depending on the exact assay. …
- 1,511
3
votes
issue with rna seq analysis
Several issues:
There is no non-coding RNA genome. There are non-coding genes but the genome fasta files from Ensembl are always the entire genome and this is what you should align against. Probably …
- 1,511
1
vote
What are the output files of RNA-Seq from facility?
This cannot be predicted unless you have interacted with them previously. Most commonly a sequencing facility will send raw data as gzipped fastq files, often together with md5 checksums so the user c …
- 1,511