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1
vote
3
replies
887
views
Tool for calculation of free energy of most likely secondary structure of an RNA sequence
RNA structure free energy
3.6 years ago by caggtaagtat ★ 1.9k
1
vote
2
replies
721
views
Whats best practice for Gene set enrichment analysis?
GSEA
updated 4.2 years ago by 7.5k • written 4.2 years ago by ★ 1.9k
2
votes
2
replies
769
views
Evolutionary distance from as many organisms as possible to humans
genome relation evolutionary distance
4.8 years ago by caggtaagtat ★ 1.9k
0
votes
0
replies
577
views
Genome-guided transcriptome reconstruction
RNA-seq transcriptome
4.9 years ago by caggtaagtat ★ 1.9k
5
votes
2
replies
2.8k
views
Difference between GRCh38.91 and GRCh38.p12
genome annotation
updated 5.0 years ago by 23k • written 5.0 years ago by ★ 1.9k
3
votes
11
replies
4.7k
views
Extract read sequence from BAM files depending on the alignment coordinates
RNA-seq
updated 5.2 years ago by ★ 3.8k • written 5.2 years ago by ★ 1.9k
2
votes
4
replies
1.9k
views
Transcript assembly with nanopore long reads
assembly transcriptome long reads
updated 5.3 years ago by 6.4k • written 5.3 years ago by ★ 1.9k
2
votes
4
replies
3.3k
views
Where can I find the reference files for the 1000 Genome project VCF data?
VCF 1000 Genome Reference
updated 21 months ago by 3.2k • written 5.3 years ago by ★ 1.9k
4
votes
3
replies
1.2k
views
Haplotype annotation in VCF file of phase 3 1000 Genome project
SNP VCF Haplotype
updated 5.3 years ago by 16k • written 5.3 years ago by ★ 1.9k
3
votes
2
replies
1.1k
views
How to meassure transcript expression from Oxford nanopore sequencing data
RNA-Seq Transcript expression nanopore
updated 5.4 years ago by 47k • written 5.4 years ago by ★ 1.9k
1
vote
2
replies
1.1k
views
Why are file names deleted during submission of RNA-seq data to ENA, after disabling editor mode.
RNA-seq ENA FASTQ
5.5 years ago by caggtaagtat ★ 1.9k
1
vote
2
replies
3.1k
views
Calculating significant variance of gene expression across multiple samples
RNA-Seq DGE DSEQ2 R
updated 5.5 years ago by 82k • written 5.5 years ago by ★ 1.9k
2
votes
2
replies
6.1k
views
What does the transcript support level (TSL) from ensembl mean?
TSL ensembl annotation
5.6 years ago by caggtaagtat ★ 1.9k
2
votes
3
replies
3.7k
views
Counting reads aligned to forward or reverse strand
RNA-Seq
updated 5.7 years ago by ★ 3.8k • written 5.7 years ago by ★ 1.9k
3
votes
6
replies
2.3k
views
How to get ungapped single-end reads from the STAR output bam file?
RNA-Seq STAR ungapped single-end
updated 5.8 years ago by 161k • written 5.8 years ago by ★ 1.9k
4
votes
8
replies
1.2k
views
Counting reads spanning two genes
RNA-Seq sequencing
updated 5.8 years ago by 161k • written 5.8 years ago by ★ 1.9k
0
votes
0
replies
1.0k
views
Abundance comparison of unprocessed large mitochondrial RNA transcirpt
RNA-Seq Mapping mitochondria
5.8 years ago by caggtaagtat ★ 1.9k
3
votes
14
replies
8.2k
views
Genebank to GTF recommended tool?
annotation RNA-SEQ GTF
5.8 years ago by caggtaagtat ★ 1.9k
2
votes
5
replies
2.3k
views
GTF file for HIV strain pNL4-3
HIV annotation mapping
updated 9 weeks ago by ▴ 140 • written 5.9 years ago by ★ 1.9k
3
votes
4
replies
1.2k
views
How to map viral RNA from human blood samples?
Metagenomics virus Mapping
5.9 years ago by caggtaagtat ★ 1.9k
2
votes
7
replies
2.7k
views
Only 1% of reads are used as "input reads" in STAR
RNA-Seq STAR mapping input
6.0 years ago by caggtaagtat ★ 1.9k
0
votes
6
replies
980
views
Summarizing info of mapped gapped reads in R
RNA-Seq R bam
6.1 years ago by caggtaagtat ★ 1.9k
9
votes
10
replies
4.0k
views
Calculating amount of reads on certain chromosomes in bam file
RNA-Seq bam samtools
updated 6.1 years ago by 47k • written 6.1 years ago by ★ 1.9k
7
votes
7
replies
4.9k
views
Which column to use from STAR output for Differential Gene Expression Analysis?
RNA-Seq STAR
updated 6.1 years ago by 14k • written 6.1 years ago by ★ 1.9k
8
votes
6
replies
1.5k
views
All chromosomes for mapping?
RNA-Seq STAR Mapping
updated 6.1 years ago by 104k • written 6.1 years ago by ★ 1.9k
1
vote
0
replies
3.2k
views
My STAR settings for alternative splicing analysis
RNA-Seq STAR mapping alternative splicing
6.2 years ago by caggtaagtat ★ 1.9k
3
votes
9
replies
9.8k
views
STAR do i need --twopassMode ?
RNA-Seq STAR 2-pass mapping
6.2 years ago by caggtaagtat ★ 1.9k
10
votes
11
replies
5.3k
views
Trimming single end reads for STAR?
RNA-Seq STAR trimming
updated 6.2 years ago by 35k • written 6.2 years ago by ★ 1.9k
2
votes
5
replies
2.8k
views
Standard options for mapping with STAR in context of RNA-seq data analysis regarding splicing
RNA-Seq STAR splicing options
updated 6.2 years ago by 104k • written 6.2 years ago by ★ 1.9k
1
vote
7
replies
1.4k
views
Where can I download genomes of Retroviruses?
genome Retrovirus database
updated 6.2 years ago by 27k • written 6.2 years ago by ★ 1.9k
0
votes
0
replies
1.3k
views
Gibbs free energy for 260,000 different short RNA duplexes (11nt)
R alignment sequence
updated 6.3 years ago by 20 • written 6.4 years ago by ★ 1.9k
3
votes
5
replies
1.6k
views
Doing RNA folding online for 1200 nt long sequence
RNA-folding RNA
updated 6.4 years ago by ★ 2.1k • written 6.4 years ago by ★ 1.9k
8
votes
5
replies
1.8k
views
Download all intronless human genes.
R sequence gene genome
updated 6.4 years ago by 21k • written 6.4 years ago by ★ 1.9k
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