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Nucleotide diversity obtained from Arlequin
Haplotype Nucleotide Arlequin DnaSP diversity
4.5 years ago by apl00028 ▴ 90
5
votes
8
replies
2.8k
views
What are the necessary and sufficient conditions for applying a multiple hypothesis correction?
multiple-comparisons statistics
updated 4.4 years ago by 23k • written 4.5 years ago by ▴ 390
2
votes
2
replies
1.8k
views
Different Sequence Length Distribution between forward and reverse reads
FastQC Length Distribution human DNA Sequence
4.5 years ago by Linda • 0
2
votes
4
replies
2.4k
views
ATAC-seq - remove mt reads using KMC
samtools chrM ATAC-seq mitochondria KMC
4.5 years ago by maxrwjones ▴ 60
0
votes
1
reply
1.4k
views
STRINGdb r package blocked by antivirus and changes output?
STRINGdb R
updated 4.5 years ago by 89k • written 4.5 years ago by ▴ 20
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0
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1.3k
views
Which Manta output file one must consider in a joint tumor/normal SVs call?
Structural Variants Manta
4.5 years ago by giusdalt95 ▴ 10
0
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0
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1.3k
views
SEACR multiple control files
IgG peak-calling SEACR CutAndRun
updated 23 months ago by 45k • written 4.5 years ago by ▴ 40
1
vote
1
reply
762
views
Compare different microbial databases
comparison microbial databases
updated 4.5 years ago by 153k • written 4.5 years ago by ▴ 10
1
vote
2
replies
2.8k
views
Most stringent settings for bwa mem
alignment bwa dna
updated 4.5 years ago by 103k • written 4.5 years ago by ▴ 120
1
vote
2
replies
1.3k
views
How to interpret De Novo Sequence from Trinity
novo trinity de
4.5 years ago by progistar ▴ 40
0
votes
0
replies
773
views
IVA: kmc error
shiver genomeassembly hiv
4.5 years ago by waqasnayab ▴ 250
1
vote
1
reply
1.2k
views
Cystoscope network visualization
STRING Ctopscape
updated 4.5 years ago by ▴ 940 • written 4.5 years ago by ▴ 20
0
votes
2
replies
1.4k
views
so any method to remove header part of FASTA file
fasta
updated 4.5 years ago by 16k • written 4.5 years ago by ▴ 10
2
votes
4
replies
1.6k
views
What are the disadvantages of increasing the sequencing depth of RNA-seq experiment?
NGS RNA-Seq sequencing depth transcriptome
4.5 years ago by mrj ▴ 180
0
votes
0
replies
1.1k
views
Missing Kraken database.kdb file
kraken
4.5 years ago by valentinav • 0
1
vote
3
replies
2.0k
views
Searching for conserved domains in a chromosome/scaffold
blast domain CDD PSSM rpsblast
updated 4.5 years ago by ★ 30k • written 4.5 years ago by ▴ 270
1
vote
6
replies
2.7k
views
How to add space in specific location in a barplot using ggplot2
GROUPING R GGPLOT2
updated 4.4 years ago by 45k • written 4.5 years ago by ▴ 20
0
votes
0
replies
688
views
SortmeRNA error
SortmeRNA RNA-seq
updated 4.5 years ago by 153k • written 4.5 years ago by • 0
0
votes
5
replies
2.1k
views
How to use the goseq for ensemble gene ID
RNA-SEQ R annotations GO
4.5 years ago by BISEP ▴ 10
0
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1
reply
1.2k
views
Are ribosomal protein coding genes depleted as well during rRNA depletion?
rRNA RNA-seq depletion annotations
updated 4.5 years ago by 153k • written 4.5 years ago by • 0
0
votes
0
replies
739
views
How to calculate power to detect mQTLs?
Illumina power mqtl methylation
4.5 years ago by anamaria ▴ 220
0
votes
1
reply
1.7k
views
merging fastq paired ends
Illumina fastq seqtk
updated 4.5 years ago by 153k • written 4.5 years ago by • 0
0
votes
1
reply
1.4k
views
Bioinformatics definition of TAD boundary
hiTADs Hi-C TAD
updated 4.4 years ago by ▴ 380 • written 4.5 years ago by ▴ 740
1
vote
2
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979
views
miRNA length distribution
miRNA rna small
4.5 years ago by LynxLynx • 0
0
votes
1
reply
705
views
Python/Perl/R to export Nucleotide/Amino Acid Sequence of Genomic Variants
gene genomics analysis
updated 4.2 years ago by 45k • written 4.5 years ago by • 0
1
vote
0
replies
5.9k
views
Seurat FindVariableFeatures algorithm understanding Single Cell
Seurat algorithm selection feature
4.5 years ago by Matt ▴ 20
0
votes
2
replies
1.1k
views
Power analysis to determine sample size for a single-cell sequencing study
sequencing single-cell
4.5 years ago by halo22 ▴ 300
0
votes
1
reply
1.7k
views
fastq-dump and fasterq-dump not working
fastq prefetch ncbi sratoolkit
updated 4.2 years ago by 45k • written 4.5 years ago by • 0
0
votes
0
replies
697
views
Find genomic coordinates for exons in historical transcripts
genome exon human coordinates
4.5 years ago by raptly61549 • 0
0
votes
0
replies
2.5k
views
Troubleshooting abnormal ATAC-seq diagnostic plots
QC Sequencing ATAC-seq Troubleshooting
4.3 years ago by cwwong13 ▴ 40
2
votes
5
replies
2.8k
views
align interleaved fastq file
interleaved fastq align
updated 4.5 years ago by 153k • written 4.5 years ago by ▴ 20
0
votes
0
replies
732
views
Merging Output from Trinity and Go analysis
transcriptome merge assembly
4.5 years ago by dimitrischat ▴ 210
3
votes
3
replies
1.9k
views
Can I pool RNA-seq library with ATAC-seq library and sequence in the same S4 lane?
RNA-seq Sequencing ATAC-seq
updated 4.5 years ago by 153k • written 4.5 years ago by ▴ 40
1
vote
4
replies
1.9k
views
BAM file's reference sequence IDs doesnt match contigs ID's
metagenomics alignment bam
updated 2.5 years ago by 45k • written 4.5 years ago by ▴ 140
1
vote
3
replies
2.5k
views
Nanopore structural variant calling - more than 2 alleles on IGV track?
nanopore structural variant igv vcf
updated 5.4 years ago by • 0 • written 5.7 years ago by ▴ 200
3
votes
2
replies
1.3k
views
sharing a cytoscape installation with multiple terminals
server hpc cytoscape
updated 4.5 years ago by ▴ 310 • written 4.5 years ago by • 0
6
votes
4
replies
2.3k
views
merge .fastq.gz files
RNA-seq
updated 4.5 years ago by 15k • written 4.5 years ago by ▴ 260
4
votes
4
replies
3.1k
views
RNA velocyto scRNA-seq install
gcc about some version questions
updated 4.5 years ago by 13k • written 4.5 years ago by ▴ 90
0
votes
2
replies
1.2k
views
Combining multiple Streak variant files with their filename
NGS VCF Strelka2
4.5 years ago by parvathi.sudha ▴ 40
1
vote
0
replies
1.8k
views
News: Webinar - Recent and upcoming enhancements in web BLAST and Primer-BLAST! (Wed, April 7, 2021 12:00 PM - 12:45 PM EDT)
primer-BLAST blast
4.5 years ago by GenoMax 153k
3
votes
5
replies
2.6k
views
normalize different size fastq files
metagenome data genomics normalization
4.5 years ago by serene.s • 0
1
vote
0
replies
653
views
What the difference between last-split and single2_cov
MSA TBA LAST
4.5 years ago by gengyang12138 ▴ 20
1
vote
1
reply
4.3k
views
Converting VCF from hg19 to hg38
remapping VCF
updated 4.5 years ago by 166k • written 4.5 years ago by ▴ 40
3
votes
2
replies
2.6k
views
bbcms vs bbnorm when working with highly uneven coverage
BBTools Metagenomics Megahit Assembly BBNorm
updated 3.7 years ago by • 0 • written 4.5 years ago by ▴ 170
0
votes
0
replies
725
views
GATK VQSR filter
NA12878 VariantRecallibration
4.5 years ago by esimonova.me ▴ 30
0
votes
0
replies
620
views
Problem in a microbial functional gene analysis.
database Protein
updated 4.5 years ago by 153k • written 4.5 years ago by • 0
0
votes
0
replies
684
views
Why hifi-read SV different from HG002_SVs_Tier1_v0.6.vcf
ccs
4.5 years ago by eioyuou • 0
4
votes
2
replies
2.0k
views
Forum: Why did expression based subtypng of breast cancer gain much more acceptance than others
RNA-Seq subtyping expression
updated 4.5 years ago by 153k • written 4.5 years ago by ▴ 750
0
votes
0
replies
653
views
Tool for pathogen Detection from metagenome
metagenome genomics
updated 2.3 years ago by 45k • written 4.5 years ago by • 0
0
votes
2
replies
2.8k
views
Genes whose names starts with AL
whose AL Genes starts with names
updated 4.5 years ago by 24k • written 4.5 years ago by • 0
121,907 results • Page 681 of 2439
Recent Votes
Answer: Tried building a compact sequence format with 4-bit storage
Tried building a compact sequence format with 4-bit storage
Shift in RNA 3' position, Term-Seq vs RNASeq
Comment: STARlong for pacbio Isoseq reads
Comment: Automatically annotating a feature using a genbank file
Answer: Is this PCA plot correct??
Answer: Is this PCA plot correct??
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Comment: Tried building a compact sequence format with 4-bit storage by Alex Reynolds 36k
Using four bits for storage won't beat 2bit, of course, but direct access to a sequence of interest sounds interesting and useful and might…
Comment: Hifiasm is getting killed while trying to assemble a genome by Panos ★ 1.8k
Why don't you subsample your HiFi reads and try running hifiasm again? Maybe this will help if you have memory problems. However, I haven't…
Comment: Is total miRNA in EV constant? Implications for library size normalization. by Gordon Smyth ★ 8.3k
RNA-seq is very good at relative analyes. It would be straightforward to determine which miRNAs are relatively more abundant, compared to o…
Comment: Tried building a compact sequence format with 4-bit storage by Pranava ▴ 10
Woah!!! Thank you very much, Matthias. I honestly didn't even know some of those existed and I will definitely go through them and try to u…
Answer: Tried building a compact sequence format with 4-bit storage by Matthias Zepper 5.1k
Hello Pranava, Thanks for sharing your repository. Devising a new file format is an interesting undertaking and certainly a task with many…
Answer: Gene Ontology Enrichment with LOC gene IDs in Common Carp (Cyprinus carpio) by GenoMax 153k
`LOC` gene ID's are often assigned to uncharacterized genes and you may not get useful information from databases for them, thus they will …
Comment: Whole Genome Sequencing IG regions by GenoMax 153k
> are the calls I am seeing reliable or should I take them with something of a pinch of salt? Not sure what calls you are referring to but…
Comment: RNA-SEQ where only a subset of genes is of interest by piffelpaff • 0
Sorry to revive this ancient thread but I'm currently discussing the same question with some people in my lab and would love to somebody po…
Answer: STARlong for pacbio Isoseq reads by YuZJ • 0
Hello, you may try deSALT (DOI: 10.1186/s13059-019-1895-9, GitHub: ydLiu-HIT/deSALT) or uLTRA (DOI: 10.1093/bioinformatics/btab540, GitHub:…
Comment: Shift in RNA 3' position, Term-Seq vs RNASeq by acvill ▴ 350
Without knowing the details of the Term-seq method, could the 38 nt shift be accounted for by the difference in the position of the ribosom…
Comment: STARlong for pacbio Isoseq reads by Buffo ★ 2.4k
Thanks, I'll give it a try.
Comment: STARlong for pacbio Isoseq reads by GenoMax 153k
You could give `mapPacBio.sh` from BBMap suite a try while you wait for other answers. That works for reads up to 6 kb. BBMap has a new hom…
Comment: STARlong for pacbio Isoseq reads by Buffo ★ 2.4k
The average is 1.8kb. I was planning to post it on GitHub, but it seems like the repository has been unattended for the last months, so I d…
Comment: Getting just fastqc.zip file? by GenoMax 153k
Yes, You can either use it on command line or use the graphical user interface.
Comment: STARlong for pacbio Isoseq reads by GenoMax 153k
What is the average length of your reads? That error sounds like a bug, so you may want to post that on `STAR` repo as an issue. I assume …
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