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121,901 results • Page
26 of 2439
Sort: Rank
Rank
Views
Votes
Replies
0
votes
3
replies
640
views
How to Close a Phage Genome? Issues with PhageTerm and CheckV Completeness
phage
genome
assembly
PhageTerm
updated 5 months ago by
GenoMax
153k • written 5 months ago by
mail2steff
▴ 70
2
votes
2
replies
781
views
RepBase30.02.fasta.tar.gz
RepBase30.02.fasta.tar.gz
offtopic
updated 5 months ago by
Michael
56k • written 5 months ago by
jupitoy
• 0
1
vote
5
replies
1.8k
views
CIBERSORTx error (error in rep(2, size * length(cells) -1)) : invalid 'times' argument
deconvolution
RNA-seq
CIBERSORTx
CIBERSORT
updated 7 months ago by
zhbyrd
• 0 • written 15 months ago by
Mr. George
▴ 10
2
votes
2
replies
736
views
Differences in DEG results using RSEM with and without the --strandness reverse
rsem
DEG
STAR
transcriptomic
updated 5 months ago by
LauferVA
4.8k • written 5 months ago by
Emy Alade
▴ 20
3
votes
5
replies
1.1k
views
Absolute vs. differential gene expression - which analysis is more informative?
Differential-gene-expression
Gene-expression
RNA-Seq
updated 5 months ago by
LauferVA
4.8k • written 5 months ago by
bioinfo1990
▴ 10
3
votes
3
replies
1.0k
views
making psam file for plink2
plink2
5 months ago by
dec986
▴ 380
4
votes
4
replies
848
views
gtf file for canFam2 genome version
gtffile
5 months ago by
1769mkc
★ 1.3k
2
votes
2
replies
743
views
Bioinformatics
StringDB
updated 5 months ago by
Ram
45k • written 5 months ago by
ahmad79rezahay
• 0
0
votes
0
replies
473
views
News:
Epigenomics Data Analysis
Epigenomics
RNA-seq
ATAC-seq
Chip-seq
HI-C
5 months ago by
Physalia-courses
★ 2.6k
4
votes
8
replies
1.3k
views
does any licenses needed to make experiments?
offtopic
updated 5 months ago by
Dunois
★ 2.9k • written 5 months ago by
suleyman
• 0
6
votes
5
replies
863
views
Strange overrepresented sequence
fastQC
adapter
rnaseq
5 months ago by
georomano
• 0
13
votes
6
replies
7.0k
views
Add metadata based on tree structure
R
ggtree
updated 5 months ago by
rsieber
▴ 10 • written 5.9 years ago by
Jack
▴ 50
0
votes
3
replies
538
views
Normalize RNAseq data on RT-dPCR or RT-qPCR
RNAseq
updated 5 months ago by
ATpoint
89k • written 5 months ago by
lagartija
▴ 160
0
votes
2
replies
598
views
Is there a way to import a large amount of regions of interest into IGV
sequencing
igv
genomics
ngs
updated 5 months ago by
GenoMax
153k • written 5 months ago by
Mark
▴ 60
4
votes
10
replies
1.4k
views
Question about an alignment
ces
sequencing
alignment
5 months ago by
barslmn
★ 2.4k
0
votes
2
replies
469
views
Arioc (read mapping) ref sequence length error
mapping
gpu
arioc
read
5 months ago by
Michael
• 0
0
votes
0
replies
461
views
When I want to compare two groups at multiple time points in scRNA-seq datasets, the criteria for the genes to be analyzed
Seurat
scRNA-seq
5 months ago by
Apprentice
▴ 190
7
votes
6
replies
1.4k
views
Heatmap problem in R
R
Heatmap
6 months ago by
ParastooA
▴ 20
3
votes
4
replies
952
views
Bacterial VCF file annotation using snpEff error
SnpEff
5 months ago by
1769mkc
★ 1.3k
1
vote
4
replies
1.2k
views
Coverage depth using samtools
samtools
ngs
depth
sequencing
coverage
5 months ago by
slzr_
▴ 10
4
votes
4
replies
889
views
MarkDuplicates RNASeq: A few samples look weird. What could be the cause?
qc
markduplicates
picard
rnaseq
updated 6 months ago by
GenoMax
153k • written 6 months ago by
Davor
• 0
0
votes
2
replies
604
views
Data Integrity (NCBI SRA and TCGA)
clinic
metadata
updated 5 months ago by
Zhenyu Zhang
★ 1.3k • written 6 months ago by
umarfaruksahin
• 0
0
votes
0
replies
1.6k
views
concatenating 2 differently-imputed VCF files then filtering by imputation score to keep the higher imputation score imputed vaiant from duplicate v…
Imputation
filtration
score
duplicate
variants
6 months ago by
SalmaElShafie
• 0
0
votes
0
replies
328
views
loss of coverage using gargammel
gargammel.pl
ART
AdapterRemoval
6 months ago by
anna.utili
• 0
1
vote
2
replies
603
views
What is the stance on optical duplicates in RNASeq?
duplicates
rnaseq
optical-duplicates
5 months ago by
Davor
• 0
5
votes
6
replies
1.3k
views
How to rank genes for GSEA using edgeR-LRT results ?
DEG
edgeR
updated 10 weeks ago by
Gordon Smyth
★ 8.3k • written 6 months ago by
Picasa
▴ 690
4
votes
3
replies
1.0k
views
Using bulk RNA-seq DE results to perform PCA in single cell RNA-seq
Single-cell
scRNAseq
updated 5 months ago by
jared.andrews07
★ 19k • written 6 months ago by
Oli
• 0
3
votes
1
reply
556
views
Access to dbSnp137 (GRCh37)
dbSnp137
GRCh38
dbSnp
updated 6 months ago by
Marcellie87
▴ 10 • written 6 months ago by
Steven
▴ 50
0
votes
0
replies
331
views
How to convert RAP-DB/MSU IDS to RefSeq/Entrez Gene IDS?
IRGSP
Entrez
RAP-DB
RefSeq
6 months ago by
ChanderKant (CK) Chaudhary
▴ 10
4
votes
4
replies
2.9k
views
Annotating single cell data automatically
single-cell
updated 6 months ago by
S.Ghazala
▴ 60 • written 17 months ago by
Gerard
▴ 20
4
votes
0
replies
533
views
News:
Join the online/distributed nf-core Hackathon next week!
nf-core
nextflow
container
workflows
bioinformatics
6 months ago by
Matthias Zepper
5.1k
0
votes
3
replies
765
views
Non variants sites of the genome (gVCF file)
non
genome
variants
sites
gVCF
updated 5 months ago by
LauferVA
4.8k • written 6 months ago by
heureuse
▴ 10
1
vote
1
reply
524
views
Choosing the "right" sequence as an input control
input
control
chipseq
updated 6 months ago by
ATpoint
89k • written 6 months ago by
mark.pekarsky
▴ 20
1
vote
2
replies
1.1k
views
Unable to parse config file
nextflow
nf-core
Pulled
form
github
updated 6 months ago by
Phil Ewels
★ 1.5k • written 6 months ago by
JieQY
• 0
0
votes
1
reply
535
views
Seeking Guidance on Selecting Control ChIP Sequences for nf-core/chipseq Pipeline
SRR
nf-core
chipseq
updated 5 months ago by
mark.ziemann
★ 2.0k • written 6 months ago by
mark.pekarsky
▴ 20
0
votes
0
replies
376
views
Problem with GSVA output
GSVA
RNAseq
6 months ago by
a.stef.44
▴ 10
0
votes
2
replies
833
views
Using UMI-tools on Smart-seq3 RNA-Seq data
rna-seq
UMI
UMI-tools
smart-seq3
updated 6 months ago by
Ram
45k • written 6 months ago by
Agastya
▴ 10
1
vote
5
replies
1.0k
views
Remove site with only missing data
Fasta
updated 6 months ago by
Pierre Lindenbaum
166k • written 6 months ago by
Leane
• 0
0
votes
3
replies
800
views
Problems with Seaborn plots in Python
python
sns
plot
updated 6 months ago by
Wayne
★ 2.1k • written 6 months ago by
egascon
▴ 60
4
votes
4
replies
1.1k
views
Downloading full list of Homo sapiens genes
Genes
6 months ago by
Nigussie
• 0
0
votes
1
reply
493
views
How to normalise Nanopore mRNA sequencing data between two cell lines
Nanopore
RNAseq
Normalization
updated 5 months ago by
lagartija
▴ 160 • written 6 months ago by
Mo
▴ 50
2
votes
5
replies
4.9k
views
Python library for parsing bcftools stats file
bcftools
updated 6 months ago by
Pierre Lindenbaum
166k • written 8.1 years ago by
William
★ 5.4k
0
votes
0
replies
333
views
Manta SV (specially Translocation)
manta
Structural-Variant
updated 6 months ago by
Ram
45k • written 6 months ago by
Nai
▴ 50
0
votes
3
replies
964
views
Cytoscape COLOUR EDGES
Reulatory
Cytoscape
Networks
updated 6 months ago by
Scooter
▴ 310 • written 6 months ago by
SKY
▴ 60
3
votes
3
replies
1.8k
views
How to perform PPI network analysis in STRING for newly sequenced bacterial genome ?
Proteomics
cytoscape
network
STRING
updated 5 months ago by
bioinfo_enthusiast
• 0 • written 4.3 years ago by
Kumar
▴ 120
0
votes
0
replies
333
views
How to perform burden test using plink /seq
plink-seq
Burden-Test
updated 6 months ago by
Ram
45k • written 6 months ago by
aiswaryabioinfo
▴ 30
0
votes
3
replies
747
views
Higher number of reads mapped to transcriptome vs genome in star mapping
riboseq
star
bam
transcriptome
alignment
updated 6 months ago by
i.sudbery
22k • written 6 months ago by
paguirreazorin
• 0
1
vote
4
replies
995
views
Visualisation of read depth
coverage
read-depth
variant-calling
updated 6 months ago by
Ram
45k • written 6 months ago by
AIMAR
▴ 70
7
votes
5
replies
1.3k
views
Tool:
AliNe (Alignment in Nextflow)
nextflow
alignment
6 months ago by
Juke34
9.3k
0
votes
0
replies
405
views
construct PKN
REGULATORY
PKN
MOUSE
NETWORKS
GENE
6 months ago by
rahma.khoualdia
• 0
121,901 results • Page
26 of 2439
Recent Votes
Comment: Automatically annotating a feature using a genbank file
Answer: Is this PCA plot correct??
Answer: Is this PCA plot correct??
Comment: Is this PCA plot correct??
Subsetting before QC in Spatial Transcriptomics
Comment: Subsetting before QC in Spatial Transcriptomics
Answer: Snakemake >= version 8 cluster configuration and SLURM job submission
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• 0
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Physalia-courses
★ 2.6k
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Comment: Whole Genome Sequencing IG regions
by
719
• 0
Sorry for the poor wording of the original post, also should say I really appreciate people taking a moment to look at my post. My main con…
Comment: Is total miRNA in EV constant? Implications for library size normalization.
by
Thomas.H.Hampton
▴ 10
Thanks again for your carefully considered reply. You asked what I am hoping to learn from a DE analysis. Autologous stem cells are well …
Comment: Subsetting before QC in Spatial Transcriptomics
by
Kent
▴ 30
Hi ATpoint, thank you very much for the helpful insight! I'm still doing some literature reading on this myself, but have you come across a…
Comment: Whole Genome Sequencing IG regions
by
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89k
The question is what you are after. Is this a disease setup, or...well, what is this all about. Generally, these regions are hotspots of hy…
Comment: Whole Genome Sequencing IG regions
by
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166k
please define "interesting"
Comment: Hifiasm is getting killed while trying to assemble a genome
by
pranavdatar01
• 0
These are PacBio HiFi reads (total reads 5,237,005), and the total data size is 255 GB. I am the only user on the system.
Comment: Subsetting before QC in Spatial Transcriptomics
by
ATpoint
89k
Yes, absolutely. It is even (to me) a good practice to do (automated) crude celltype assignment first because QC metrics, such as number of…
Comment: Hifiasm is getting killed while trying to assemble a genome
by
pranavdatar01
• 0
I am expecting the genome to be around 1.5 Gb.
Comment: Hifiasm is getting killed while trying to assemble a genome
by
GenoMax
153k
> I even tried to decrease the number of threads and even used -f0, but nothing is working out. What kind of dataset is this? How many r…
Comment: Hifiasm is getting killed while trying to assemble a genome
by
Panos
★ 1.8k
How large do you expect the genome to be? For some human genomes that I tried it (i.e. genome size ~3Gbp), peak memory usage was ~160GB RAM…
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marongiu.luigi
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Thank you. I am now using the latest version of BBmap and it works. There must have been a file corruption somewhere.
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7.9k
You're right about contiguity with these exceptionally short ONT reads, but there is no harm in trying. It depends on the repeat content of…
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Hi, I am not sure if you still remmeber the solution you followed that time. But I am stuck with similar problem. scVI is not working good …
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Have you looked at https://nextstrain.org/ and specifically https://github.com/nextstrain/seasonal-flu Software is available to do the ana…
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Use this tutorial for how to upload images: https://www.biostars.org/p/309884/#346553 Only difference is instead of using an external imag…
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