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3
votes
2
replies
1.2k
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What's the best 3rd party software for doing analysis on 10X Genomics ATAC-seq data?
atac-seq 10X
updated 23 months ago by ▴ 800 • written 5.0 years ago by ▴ 200
1
vote
3
replies
2.0k
views
Nanopore structural variant calling - more than 2 alleles on IGV track?
nanopore structural variant igv vcf
updated 4.0 years ago by • 0 • written 4.3 years ago by ▴ 200
3
votes
2
replies
1.8k
views
Normalizing genes between arrays with Limma
microarray limma
updated 4.2 years ago by ★ 7.0k • written 4.2 years ago by ▴ 200
0
votes
0
replies
667
views
BBMap reformat.sh qahist statistics interpretation?
bbmap
4.5 years ago by BioinformaticsLad ▴ 200
2
votes
2
replies
1.9k
views
Tool to calculate insertion, deletion, mismatch rate in alignments?
alignment
updated 4.5 years ago by 35k • written 4.5 years ago by ▴ 200
4
votes
7
replies
1.2k
views
Detection of antibiotic resistance genes in shotgun metagenomic samples
metagenomics
updated 4.6 years ago by ★ 2.2k • written 4.6 years ago by ▴ 200
8
votes
5
replies
3.6k
views
Shotgun metagenomics high duplication read rate - how high is too high?
WMS shotgun metagenomics
updated 4.6 years ago by 6.4k • written 4.6 years ago by ▴ 200
0
votes
0
replies
641
views
Shotgun metagenomic positive control dataset?
shotgun metagenomic
4.6 years ago by BioinformaticsLad ▴ 200
3
votes
3
replies
941
views
How are high phred scores represented?
consensus assembly
updated 4.8 years ago by 6.4k • written 4.8 years ago by ▴ 200
5
votes
2
replies
1.6k
views
Necessary to filter out nanopore (or PacBio) reads before mapping?
nanopore minimap2 alignment mapping
updated 4.9 years ago by 20 • written 4.9 years ago by ▴ 200
9
votes
7
replies
1.9k
views
Programs for bacterial gene prediction/annotation for nanopore assembly?
gene prediction annotation nanopore prokka glimmer
updated 4.9 years ago by ★ 1.9k • written 4.9 years ago by ▴ 200
6
votes
8
replies
1.8k
views
Nanopore reads of simple repeats
nanopore
5.1 years ago by BioinformaticsLad ▴ 200
4
votes
1
reply
696
views
Methods to determine if a nanopore 1-D read is from the forward or reverse strand without a reference?
nanopore
updated 5.1 years ago by 47k • written 5.1 years ago by ▴ 200
4
votes
2
replies
1.3k
views
Oxford Nanopore insertion vs deletion rates
basecalling nanopore
updated 5.1 years ago by 47k • written 5.1 years ago by ▴ 200
16
votes
7
replies
1.5k
views
Why does UCSC produce reference genomes when GRC already does it well?
assembly reference
updated 5.1 years ago by 47k • written 5.1 years ago by ▴ 200
5
votes
6
replies
6.4k
views
Checking MAPQ=255 (unique mapping) interpretation
mapping sam
updated 5.1 years ago by 104k • written 5.1 years ago by ▴ 200
1
vote
2
replies
1.5k
views
Typical cutoffs for hyper- and hypo-methylation?
mbd-seq medips methylation
5.2 years ago by BioinformaticsLad ▴ 200
4
votes
2
replies
1.4k
views
Plotting MBD-seq results
methylation mbd-seq
updated 5.2 years ago by ★ 3.8k • written 5.2 years ago by ▴ 200
5
votes
3
replies
1.6k
views
Shotgun metagenomics: Why bother with de novo assembly?
metagnomics assembly
5.3 years ago by BioinformaticsLad ▴ 200
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