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Limit : this year
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1,000 results • Page
5 of 20
Sort: Votes
Rank
Views
Votes
Replies
3
votes
2
replies
415
views
t-test by row
R
t-test
updated 5 months ago by
dthorbur
★ 2.0k • written 5 months ago by
sooni
▴ 20
3
votes
4
replies
779
views
Should we update time periods in a Bibliometric analysis even after completing it, if it's found to be generating biased results due to recent study?
review
bibliometric
offtopic
12 weeks ago by
Md. Al - Mustanjid
▴ 30
3
votes
4
replies
741
views
Identify Alternative Splicing Event using exon and junction count table
alternative-splicing
RNA-seq
updated 10 months ago by
Eric Lim
★ 2.1k • written 10 months ago by
rhonddaskl
• 0
3
votes
5
replies
1.2k
views
kraken2 bacteria database 250GB+
metagenomics
16s
kraken2
kraken
updated 6 months ago by
GenoMax
142k • written 6 months ago by
10mz1
▴ 10
3
votes
2
replies
738
views
Scvelo vs Monocle3
monocle3
scvelo
7 months ago by
Chris
▴ 280
3
votes
6
replies
832
views
Annotating genome based on Sequence
genome
annotation
updated 6 months ago by
Darked89
4.6k • written 6 months ago by
buhbs
▴ 30
3
votes
1
reply
562
views
chromosome location to gene name and aa change
variant-annotation
12 months ago by
Zi
• 0
3
votes
4
replies
1.1k
views
Ballgown DE analysis
R
ballgown
Differential-expression
updated 8 months ago by
Ram
43k • written 2.3 years ago by
iamsmor
• 0
3
votes
3
replies
351
views
learning bioinformatics
course
learning
updated 3 months ago by
Ram
43k • written 3 months ago by
sevda
• 0
3
votes
5
replies
705
views
ATAC-Seq and featureCounts
ATAC-Seq
featureCounts
updated 4 months ago by
ATpoint
82k • written 4 months ago by
qudrat.nii
▴ 10
3
votes
9
replies
812
views
Understanding this analysis pipeline
reads
updated 10 months ago by
Ram
43k • written 10 months ago by
artemchuki
• 0
3
votes
1
reply
207
views
Question about methylation location
Methylation
WGBS
bisulfide
updated 7 days ago by
dthorbur
★ 2.0k • written 7 days ago by
Eren
• 0
3
votes
4
replies
666
views
Visualization of multiple sequence alignment quality
blastp
blast
msa
updated 8 months ago by
GenoMax
142k • written 8 months ago by
dec986
▴ 380
3
votes
2
replies
434
views
Converting STAR Gene-level alignment to TPM expression
RNA-seq
updated 6 months ago by
ATpoint
82k • written 6 months ago by
CTLong
▴ 110
3
votes
5
replies
1.5k
views
Trouble with best practices
samtools
WES
NGS
GATK
updated 12 months ago by
Ram
43k • written 6.3 years ago by
erarroji
• 0
3
votes
5
replies
1.1k
views
Neither pysam nor samtools reading HTTPS-sourced BAM file correctly
bam
pysam
samtools
updated 8 months ago by
Istvan Albert
100k • written 8 months ago by
Alex Reynolds
35k
3
votes
5
replies
1.4k
views
AlphaMissense Plugin VEP
Plugin
VEP
Alphamissense
updated 7 months ago by
Ram
43k • written 7 months ago by
Andrea
▴ 10
3
votes
19
replies
1.6k
views
Systematic errors at the end and beginning of reads in NGS panels
NGS
error
panels
sequencing
updated 10 months ago by
Asaf
10k • written 10 months ago by
captainlabman
▴ 20
3
votes
1
reply
588
views
PLINK .ped file issue
plink
updated 7 months ago by
Ram
43k • written 7 months ago by
plinknoob23
• 0
3
votes
3
replies
466
views
I can't add VAF from population for all of my variants from VCF file
genomics
vcf
gnomad
updated 9 weeks ago by
Ram
43k • written 9 weeks ago by
Samuel
▴ 20
3
votes
7
replies
1.4k
views
VG Giraffe multi-mapped reads and definition for MAPQ score
vg
9 months ago by
Hendricks27
• 0
3
votes
7
replies
410
views
FastQC Quality per tile and per sequence behaving strange after using Cutadapt
fastqc
cutadapt
illumina
tile
paired-end
18 days ago by
salias
• 0
3
votes
5
replies
946
views
Ensembl site unresponsive in clusterProfiler analyses
parallell
clusterProfiler
R
updated 8 months ago by
manaswwm
▴ 510 • written 8 months ago by
enanoide
• 0
3
votes
14
replies
6.0k
views
remote command line BLAST job ends in CPU error and gives MBEDTLS version mismatch
blastn
mbedtls
blast
linux
blast+
updated 4 months ago by
K.Gee
▴ 40 • written 3.1 years ago by
janneken0210
• 0
3
votes
3
replies
593
views
scrna pipeline
scRNA-seq
updated 10 months ago by
Radu Tanasa
▴ 90 • written 10 months ago by
anasjamshed
▴ 120
3
votes
2
replies
324
views
Seeking Guidance on How to Annotate Unusual Cell Populations in Single-Cell Data
Transcriptomics
Single-Cell
updated 6 weeks ago by
Ram
43k • written 11 weeks ago by
Daddy
▴ 20
3
votes
6
replies
987
views
Embryo transcriptome
database
transcriptome
SRA
updated 11 months ago by
Basti
★ 2.0k • written 11 months ago by
firefox91
• 0
3
votes
7
replies
1.1k
views
Use giraffe in vg
giraffe
vg
updated 10 months ago by
Jordan M Eizenga
▴ 460 • written 10 months ago by
Michal
• 0
3
votes
7
replies
1.4k
views
Find 3'UTRs for species
Assembly
alignment
updated 11 months ago by
Ram
43k • written 4.7 years ago by
Palgrave
▴ 110
3
votes
3
replies
2.8k
views
WGCNA Labeled Heatmap
heatmap
wgcna
updated 7 months ago by
Ram
43k • written 2.6 years ago by
Anand
▴ 40
3
votes
12
replies
601
views
struggle to get fasta files from ucsc goldenPath
ucsc
getfasta
fasta
6 weeks ago by
Lila M
★ 1.2k
3
votes
7
replies
2.6k
views
6 follow
Online BLAST search using R
BLAST
R
updated 3 months ago by
SequenceServer
▴ 140 • written 2.8 years ago by
accibio
▴ 20
3
votes
6
replies
2.5k
views
How to adjust by multiple variables using ComBat-Seq?
CombatSeq
combat
rna-seq
sva
batch-effect
updated 4 weeks ago by
Ram
43k • written 22 months ago by
ev97
▴ 20
3
votes
2
replies
1.2k
views
Creating a genotype matrix for BeviMed
snp
genome
Bayesian
updated 11 months ago by
Ram
43k • written 4.3 years ago by
tacrolimus
▴ 140
3
votes
6
replies
1.3k
views
Busco Folder: prfl
gene
genome
sequencing
updated 11 months ago by
Ram
43k • written 4.2 years ago by
Bioinfo
▴ 20
3
votes
4
replies
486
views
Discrepancy between the downloaded clinvar, dbNSFP and website
dbnsfp
clinvar
updated 5 months ago by
Ram
43k • written 5 months ago by
MAPK2
▴ 40
3
votes
4
replies
5.2k
views
What does this Warning in HTSeq-count means? (Warning: Mate pairing was ambiguous)
RNA-Seq
updated 9 months ago by
tirza.doniger
▴ 10 • written 8.7 years ago by
tiago211287
★ 1.4k
3
votes
1
reply
403
views
FastQC duplicates questions
FastQC
RNA-seq
9 months ago by
Beth
▴ 10
3
votes
7
replies
6.4k
views
Human reference files in HG38 GATK resource bundle
VCF
updated 11 months ago by
DareDevil
★ 4.3k • written 6.3 years ago by
win
▴ 980
3
votes
16
replies
1.5k
views
How to bring all reads to the same length? Any tool?
Read-length
Bed
updated 11 months ago by
Ram
43k • written 4.3 years ago by
Ankit
▴ 500
3
votes
3
replies
359
views
Volcano Plot Output Inquiry: Graphs Facing Down
rstudio
volcano-plot
6 weeks ago by
Pumla
• 0
3
votes
9
replies
705
views
STARsolo seg fault without readMapNumber flag
STAR
RNA-seq
STARsolo
Velocyto
updated 6 months ago by
Ram
43k • written 6 months ago by
rbronste
▴ 420
3
votes
4
replies
3.5k
views
Switch ref/alt alleles vcf file
SNP
vcf
sequencing
updated 4 months ago by
jvt
• 0 • written 4.4 years ago by
mdstep
▴ 20
3
votes
5
replies
553
views
How to assess the quality of the assembly of unmapped reads ?
Pangenome
Iterative-assembly
3 months ago by
Sony
▴ 10
3
votes
4
replies
319
views
Truncated metadata file report from ENA Portal API
ena
python
6 days ago by
Giulia
• 0
3
votes
2
replies
473
views
Program for Overlapping DMRs (Differentially Methylated Regions) Between Groups
methylation
DMR
updated 7 months ago by
Basti
★ 2.0k • written 7 months ago by
epianalysis
• 0
3
votes
4
replies
408
views
What can cause broken read-pairs (chimeric read-pairs) in a sequencing run?
QC
3 months ago by
William
★ 5.3k
3
votes
5
replies
810
views
CHIPSEQ : Cut AND Run , DiffBind Parameters
Cut-Run
DiffBind
ChIP-seq
updated 5 months ago by
Rory Stark
★ 2.0k • written 5 months ago by
DINESHR
▴ 10
3
votes
4
replies
4.4k
views
Atypical volcano plot RNA-seq
volcano-plot
RNA-seq
deseq2
updated 8 months ago by
Ram
43k • written 5.5 years ago by
Teresa
▴ 20
3
votes
3
replies
823
views
When counting ASVs in DADA2, does a hit/count only occur at 100% alignment percent identity?
metagenomics
qiime2
amplicon
16s
dada2
updated 9 months ago by
andres.firrincieli
3.6k • written 9 months ago by
O.rka
▴ 720
1,000 results • Page
5 of 20
Recent Votes
Produce PCA bi-plot for 1000 Genomes Phase III - Version 2
Produce PCA bi-plot for 1000 Genomes Phase III - Version 2
Answer: TFs and Gene databases
A: Is there a software that can compare phylogenetic trees to each othe (face to fa
Comment: Differentially Expressed Genes between two conditions (scRNA, single GEO dataset
Differentially Expressed Genes between two conditions (scRNA, single GEO dataset with multiple samples and no cell annotations)
Differentially expressed genes between Seurat objects
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Comment: zero TPM for many gene including housekeeping when using kallisto
by
ashkan
▴ 160
@atpoint I checked all transcripts of GAPDH. they all have 0 TPM.
Comment: how to treat the replicates while performing WGCNA
by
andres.firrincieli
3.6k
> 1) I do not want to merge the MEs rather I asked about replicates, as > some replicates of same sample are showing different behavior for…
Comment: How to systematically check if a bam file is truncated
by
alanh
▴ 170
For more details about what `samtools quickcheck` actually checks for, add a few `-v`'s to the command line. $ samtools quickcheck -…
Comment: How to handle duplicated genes in TCGA data?
by
Zhenyu Zhang
★ 1.2k
Second what is said above, ensembl_id is the unique identifier. As a good bioinformatics habit, always use unique identifier for your anal…
Comment: ComplexHeatmap - How to change fontsize of rowAnnotation
by
hannes.bongartz
• 0
It doesn't work. The annotation labels are still in a default fontsize. I cant find a way to set the fontsize.
Comment: ComplexHeatmap - How to change fontsize of rowAnnotation
by
Ram
43k
Yes. The solution to most things with ComplexHeatmap is to play around with parameters.
Comment: Reconstruction of locus, order contigs
by
BATMAN
• 0
I do not want to re-annotate the genome. I ask if there is a way to extract the region aligned with the mauve, in .gbk format.
Comment: ComplexHeatmap - How to change fontsize of rowAnnotation
by
hannes.bongartz
• 0
Thank you. What exactly do you mean? Changing `ha = rowAnnotation(text = anno_mark(at = mark_at, labels = gene_names_interesting_in_cluster…
Comment: ComplexHeatmap - How to change fontsize of rowAnnotation
by
Ram
43k
Try tweaking the `gp` of the rowAnnotation instead of tweaking the `annotation_name_gp` - that might do the trick.
Comment: Help! Reconstruction of locus, order contigs
by
dthorbur
★ 2.0k
I don't understand your comment. What do you mean? > my idea is not to have to write it down If you have an alignment already, why can't…
Comment: Details on salmon index
by
Rob
6.6k
Hi Lorenzo, That is correct. The initial version of salmon used the RapMap index explained above. When we published the selective align…
Comment: Help! Reconstruction of locus, order contigs
by
BATMAN
• 0
Thanks for your reply, my idea is not to have to write it down. What I have is an alignment of the .gbk from the progressiveMauve. It would…
Comment: Faster Needleman-Wunsch rapid global alignment of two sequences?
by
Gabriel R.
★ 2.9k
I did some digging aroumd, no static binary. Plus it seems you need to roll your own program.
Comment: Faster Needleman-Wunsch rapid global alignment of two sequences?
by
Gabriel R.
★ 2.9k
We tested it, however, it does not seem to produce a fast a file of the results or anything that we can easily parse. It produces a CIGAR a…
Comment: zero TPM for many gene including housekeeping when using kallisto
by
ashkan
▴ 160
@atpoint yes but for example for the kallisto results I have expression for 2080 genes (transcripts) and the rest are 0 but in my STAR resu…
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