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1,000 results • Page
5 of 20
Sort: Votes
Rank
Views
Votes
Replies
3
votes
1
reply
228
views
Question about methylation location
Methylation
WGBS
bisulfide
updated 18 days ago by
dthorbur
★ 2.0k • written 18 days ago by
Eren
• 0
3
votes
4
replies
682
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
9
replies
729
views
STARsolo seg fault without readMapNumber flag
STAR
RNA-seq
STARsolo
Velocyto
updated 7 months ago by
Ram
44k • written 7 months ago by
rbronste
▴ 420
3
votes
3
replies
513
views
How to proceed after Kraken2 analysis
rnaseq
kraken
updated 6 months ago by
dthorbur
★ 2.0k • written 6 months ago by
pixie@bioinfo
★ 1.5k
3
votes
5
replies
974
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
6
replies
4.1k
views
how do Differential gene expression analysis by Salmon output
differential-gene-expression
Salmon
updated 7 weeks ago by
Ram
44k • written 5.6 years ago by
lkianmehr
▴ 100
3
votes
7
replies
6.4k
views
Human reference files in HG38 GATK resource bundle
VCF
updated 12 months ago by
DareDevil
★ 4.3k • written 6.3 years ago by
win
▴ 980
3
votes
3
replies
361
views
learning bioinformatics
course
learning
updated 4 months ago by
Ram
44k • written 4 months ago by
sevda
• 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 9 months ago by
Alex Reynolds
35k
3
votes
6
replies
808
views
No genes mapped in clusterprofiler gseGO
R
clusterProfiler
gseGO
GSEA
5 months ago by
jon50250
• 0
3
votes
4
replies
230
views
Invalid CIGAR after using bam clipOverlap
validatesamfile
cigar
bam
clipoverlap
1 day ago by
MboiTui
▴ 20
3
votes
7
replies
1.1k
views
Use giraffe in vg
giraffe
vg
updated 10 months ago by
Jordan M Eizenga
▴ 470 • written 11 months ago by
Michal
• 0
3
votes
6
replies
898
views
scRNA-seq: Consistent low number of cells and low fraction reads across the samples
scRNA-seq
cells
mRNA
expression
gene
updated 5 months ago by
jv
★ 1.8k • written 6 months ago by
newbee
▴ 40
3
votes
6
replies
2.5k
views
How to adjust by multiple variables using ComBat-Seq?
CombatSeq
combat
rna-seq
sva
batch-effect
updated 5 weeks ago by
Ram
44k • written 22 months ago by
ev97
▴ 20
3
votes
3
replies
319
views
Gene Specific coverage from WGS data
WGS
SARS-CoV2
updated 14 days ago by
Ram
44k • written 28 days ago by
Adyasha
• 0
3
votes
10
replies
1.3k
views
STAR index not working
STAR
RNA-Seq
8 months ago by
camillab.
▴ 160
3
votes
6
replies
905
views
Read multiple vcf files into R
R
vcf
6 months ago by
sousapaulo16
▴ 20
3
votes
2
replies
4.8k
views
How to plot a circular clustered heatmap with dendrogram
circular heatmap
updated 10 months ago by
logbio
▴ 30 • written 4.5 years ago by
The
▴ 180
3
votes
3
replies
895
views
from fasta to gtf format?
gtf
DE
fasta
updated 4 months ago by
e.r.zakiev
▴ 210 • written 3.1 years ago by
debitboro
▴ 260
3
votes
9
replies
830
views
Understanding this analysis pipeline
reads
updated 11 months ago by
Ram
44k • written 11 months ago by
artemchuki
• 0
3
votes
4
replies
3.5k
views
any recommended tools for batch effect and normalization not written in R?
R
RNA-Seq
combat
python
batch-effect
updated 5 weeks ago by
Ram
44k • written 7.2 years ago by
dyollluap
▴ 310
3
votes
3
replies
612
views
scrna pipeline
scRNA-seq
updated 10 months ago by
Radu Tanasa
▴ 90 • written 10 months ago by
anasjamshed
▴ 120
3
votes
2
replies
497
views
Program for Overlapping DMRs (Differentially Methylated Regions) Between Groups
methylation
DMR
updated 8 months ago by
Basti
★ 2.0k • written 8 months ago by
epianalysis
• 0
3
votes
6
replies
1.0k
views
Screen for transcription factors/genes that maybe the cause of a disease/difference in a phenotype
RNA-seq
ATAC-seq
11 months ago by
Chris
▴ 280
3
votes
14
replies
1.3k
views
How to extract specific region from multiple bam files and merge the outputs into single bam?
bam
rna-seq
updated 6 months ago by
GenoMax
142k • written 6 months ago by
Vasu
▴ 770
3
votes
7
replies
1.1k
views
IGV not showing bigwig track information
bigwig
IGV
ChIP-seq
updated 6 months ago by
ATpoint
82k • written 6 months ago by
Rory Osborne
▴ 10
3
votes
2
replies
336
views
Seeking Guidance on How to Annotate Unusual Cell Populations in Single-Cell Data
Transcriptomics
Single-Cell
updated 7 weeks ago by
Ram
44k • written 12 weeks ago by
Daddy
▴ 20
3
votes
7
replies
3.3k
views
vcf filter for FORMAT argument (DP/GQ/GQX > 30) multiple (380) vcf file
vcffilter
vcftools
sequencing
updated 11 months ago by
Ram
44k • written 4.2 years ago by
IndyDNA
▴ 10
3
votes
8
replies
958
views
Can these RNAseq runs be combined?
transcriptomics
replicates
RNAseq
updated 11 months ago by
GenoMax
142k • written 11 months ago by
mdrnao
• 0
3
votes
2
replies
770
views
Scvelo vs Monocle3
monocle3
scvelo
7 months ago by
Chris
▴ 280
3
votes
2
replies
230
views
Publish a Letter in higher impact vs Research article in lower impact
Article
Letter
Journal
updated 15 days ago by
ATpoint
82k • written 15 days ago by
jennyp0706
• 0
3
votes
4
replies
5.2k
views
What does this Warning in HTSeq-count means? (Warning: Mate pairing was ambiguous)
RNA-Seq
updated 10 months ago by
tirza.doniger
▴ 10 • written 8.8 years ago by
tiago211287
★ 1.4k
3
votes
3
replies
573
views
Free/open source 23andme-like analysis
SNPs
genomics
NGS
VCF
updated 5 weeks ago by
swbarnes2
14k • written 5 weeks ago by
noodle
▴ 590
3
votes
4
replies
4.4k
views
Atypical volcano plot RNA-seq
volcano-plot
RNA-seq
deseq2
updated 9 months ago by
Ram
44k • written 5.6 years ago by
Teresa
▴ 20
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
44k • written 4.3 years ago by
Ankit
▴ 500
3
votes
3
replies
374
views
Volcano Plot Output Inquiry: Graphs Facing Down
rstudio
volcano-plot
8 weeks ago by
Pumla
• 0
3
votes
3
replies
1.1k
views
Differentially Expressed Genes between two conditions (scRNA, single GEO dataset with multiple samples and no cell annotations)
scRNA-seq
RNA-Seq
Seurat
updated 7 months ago by
bk11
★ 2.5k • written 7 months ago by
prietto
▴ 10
3
votes
1
reply
409
views
FastQC duplicates questions
FastQC
RNA-seq
9 months ago by
Beth
▴ 10
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
1
reply
447
views
How to BLAST a FASTA sequence with unknown organism source
chrZ
BLAST
FASTA
updated 7 months ago by
Joe
21k • written 7 months ago by
Sd
• 0
3
votes
3
replies
342
views
How to format "I" and "D" in vcf version 4.2 for liftover analysis in GATK
gatk
vcf
liftover
updated 17 days ago by
Ram
44k • written 18 days ago by
Omics data mining
▴ 260
3
votes
2
replies
419
views
t-test by row
R
t-test
updated 6 months ago by
dthorbur
★ 2.0k • written 6 months ago by
sooni
▴ 20
3
votes
7
replies
453
views
FastQC Quality per tile and per sequence behaving strange after using Cutadapt
fastqc
cutadapt
illumina
tile
paired-end
29 days ago by
Sergio A.S.
• 0
3
votes
8
replies
672
views
Huge decrease of BUS records using bustools
single-cell
bustools
10X
3 months ago by
julien.wollbrett
• 0
3
votes
1
reply
442
views
Best Tools and Practices for CNV Variant Calling in WES Data
CNV
WES
updated 8 months ago by
Pierre Lindenbaum
162k • written 8 months ago by
Nadav
▴ 20
3
votes
2
replies
310
views
Inject haplotypes into rGFA?
Pangenome
3 months ago by
agd27
▴ 130
3
votes
5
replies
1.4k
views
AlphaMissense Plugin VEP
Plugin
VEP
Alphamissense
updated 7 months ago by
Ram
44k • written 7 months ago by
Andrea
▴ 10
3
votes
6
replies
1.1k
views
Very different QUAL scores on VCFs of same sample using different methods
deepvariant
clara-parabricks
haplotypecaller
vcf
11 months ago by
Victor
▴ 10
3
votes
1
reply
546
views
Are there pipelines to analyze the Quality Controls for ATAC-seq and ChIP-seq data?
ChIP-seq
ATAC-seq
updated 10 months ago by
Papyrus
★ 2.9k • written 10 months ago by
Dan
▴ 180
3
votes
3
replies
627
views
How do mRNASeq, BulkRNASeq, and TotalRNASeq differ in terms of workflow?
RNA-Seq
updated 7 months ago by
Ram
44k • written 7 months ago by
manish.nu
• 0
1,000 results • Page
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Recent Votes
when I use htslib to write a bam. Error of "truncated file" shows by samtools
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Answer: vg call - Selecting reference path to call on
Comment: dbNSFP4.7a database format to Annovar Format?
Comment: dbNSFP4.7a database format to Annovar Format?
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Recent Replies
Comment: How to Convert CNV Data to CNA Format for Reproducing Results with the Padma Pac
by
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Thanks @Zhenyu Zhang for your response. I have just looked at the files you mentioned. Do you have any recommended package or code snippet …
Comment: coding and non-coding region of the viral genome
by
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As far I understand non coding region equal to the intergenic region? please can you write an example for how to calculate one region ? I…
Comment: when I use htslib to write a bam. Error of "truncated file" shows by samtools
by
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162k
Thanks for the code, it's interesting. It doesn't solve the problem , but the code is missing `#include <htslib/bgzf.h>` and I cannot fin…
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by
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In the GDC, there are raw float value CNV data, and integer CNV values after advanced modeling. If you only want those floating-point numbe…
Comment: Python script to query GeneCards to get EntrezID, symbol from Ensembl geneID
by
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Please edit your original post and add this at the top so everyone reads that first. GeneCards politely asks people not to scrape - not res…
Comment: I cannot download VG in any way
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44k
In that case, OP should have said "Cannot install SequenceTube", since that is the problem, not vg. Maybe this is the SequenceTube that OP…
Comment: I cannot download VG in any way
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142k
I read that to mean that the only way they were able to download `vg` was by using `conda`. Since `SequenceTube` (whatever that is) require…
Comment: I cannot download VG in any way
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Ram
44k
> The only way that I managed to download vg is using conda, however since my primary goal is to download SequenceTube You're mentioning t…
Comment: I cannot download VG in any way
by
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44k
Also, OP buries the lede and uses a misleading title. They are able to install vg using conda, but that is secondary to them using a differ…
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Why are you not downloading the `vg` binaries provided here: https://github.com/vgteam/vg/releases/tag/v1.57.0 Use the `Click here to Downl…
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Hi, Thanks for your suggestions. > polish the long-read assembly afterwards Previously, I used Pilon for polishing and i did 10 rounds. (…
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I have the DNA sequences of every phase variable locus in the genomes of 8 bacterial isolates. Repeats range from polyG tracts around 9-20…
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For the short-read strains: <br/> I would recommend just using SPADES For the strains with long-reads: <br/> I think spades and masurca as…
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