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1,000 results • Page
1 of 20
Sort: Rank
Rank
Views
Votes
Replies
0
votes
0
replies
15
views
Calculated LAI is too large
annotation
LAI
assembly
TE
genome
1 hour ago by
Yao
▴ 30
0
votes
0
replies
32
views
How to recover the entire sequence from all_contig_annotations.csv?
VDJ
single-cell
TCR-seq
cellranger
10x
3 hours ago by
dawnyipingzou
• 0
0
votes
1
reply
56
views
Where to find old version of GATK best practice
gatk
updated 3 hours ago by
Pierre Lindenbaum
161k • written 3 hours ago by
Zhenyu Zhang
★ 1.2k
0
votes
1
reply
59
views
Nextflow docker: Error response from daemon
sarek
gatk4
docker
nextflow
updated 3 hours ago by
Pierre Lindenbaum
161k • written 3 hours ago by
Peter Chung
▴ 200
0
votes
0
replies
46
views
CreateSeuratObject taking very long
seurat
7 hours ago by
eae6d2e7
• 0
0
votes
0
replies
51
views
Multi-ploid data in ANGSD and NGSadmix
ancestry
diploid
haploid
admixture
9 hours ago by
Christopher
• 0
0
votes
1
reply
110
views
Kraken2 Custom Database non-deterministic results
Metagenomics
kraken2
updated 15 hours ago by
GenoMax
142k • written 16 hours ago by
Bjorn
• 0
0
votes
3
replies
204
views
Error in using BioSampleParser tool: subscript out of bounds
R
updated 13 hours ago by
marco.barr
▴ 130 • written 1 day ago by
Mohamed Samir
▴ 20
0
votes
0
replies
73
views
vcf phasing
beagle
WhatsHap
phasing
20 hours ago by
safeassli
▴ 10
0
votes
0
replies
72
views
Is it possible to keep gene_id and gene_name columns using Seurat::Read10X?
Seurat
single-cell
scRNA-seq
updated 18 hours ago by
Ram
43k • written 1 day ago by
ev97
▴ 20
0
votes
1
reply
116
views
GO analysis: Indicate genes corresponding to the pathway
GeneOntoloy
GO
R
updated 22 hours ago by
marco.barr
▴ 130 • written 1 day ago by
sooni
▴ 20
0
votes
1
reply
88
views
How to hide label in layout file of MCscan (python version)
MCscan
updated 21 hours ago by
GenoMax
142k • written 1 day ago by
jinyi
• 0
0
votes
0
replies
67
views
ENCORI or starBase : ceRNA data retrieval using Web API and curl
ceRNA
ENCORI
curl
microRNA
starBase
1 day ago by
V_Vibes
• 0
0
votes
0
replies
121
views
How to deal with possibly important predictors omitted during the building of an OLS multivariant linear regression model?
multivariant-linear-regression
updated 15 hours ago by
Ram
43k • written 1 day ago by
JorgeVallejo
▴ 20
0
votes
0
replies
85
views
transcriptome annotation
annotation
trinity
transcriptome
updated 19 hours ago by
Ram
43k • written 1 day ago by
Asim Bin Arshad
• 0
0
votes
5
replies
211
views
Why most genes have high padj values
RNA-seq
DEG
updated 18 hours ago by
Ram
43k • written 1 day ago by
mnx0723
• 0
0
votes
1
reply
113
views
Functional enrichment analysis for unique gene IDs
RNA-SEQ
updated 1 day ago by
ATpoint
82k • written 1 day ago by
Pegasus
▴ 100
0
votes
1
reply
129
views
PCA Visualization error in R - arguments imply differing number of rows
SNPs
PCA
GBS
LINUX
r
updated 1 day ago by
zx8754
11k • written 1 day ago by
Ali
• 0
0
votes
4
replies
232
views
GO analysis: p-value range
GO
R
updated 1 day ago by
Matthias Zepper
4.6k • written 1 day ago by
sooni
▴ 20
0
votes
0
replies
93
views
Challenges of Affymetrix probe IDs for grouping similar genes to calculate their mean
R
Mean
Affymetrix
Probes
Grouping
1 day ago by
Maryam
• 0
1
vote
8
replies
425
views
Add stats to the plot
R
updated 3 hours ago by
marco.barr
▴ 130 • written 2 days ago by
Ghada
• 0
0
votes
4
replies
320
views
scRNA-seq data trained model can be used for predictions on bulk RNA-seq data?
rna-seq
1 day ago by
Bibi
• 0
0
votes
0
replies
107
views
handling bio replicates for chromHMM
replicates
chromHMM
1 day ago by
Hasan_Daaboul
• 0
0
votes
0
replies
99
views
Tool for within-sample ligand-receptor analysis (bulk RNA-seq) ?
cell-cell
communication
ligand-receptor
self-regulation
1 day ago by
DGTool
▴ 20
0
votes
0
replies
116
views
problems in installing rDock
rDock
updated 15 hours ago by
Ram
43k • written 2 days ago by
Rodolfo Adrián
• 0
1
vote
1
reply
338
views
Error in CIBERSORTx ($ operator is invalid for atomic vectors)
CIBERSORTx
cibersort
error
RNA-Seq
deconvolution
updated 2 days ago by
nguyenn6
• 0 • written 3 months ago by
star
▴ 10
0
votes
0
replies
136
views
Buzzled by retrieving metadata on bioprojects for an organism using "rentrez" package
R
updated 2 days ago by
Pierre Lindenbaum
161k • written 2 days ago by
Mohamed Samir
▴ 20
0
votes
0
replies
144
views
Tera-scale metagenomic coassembly tool
co-assembly
Metagenomics
2 days ago by
Moinuddin
• 0
0
votes
1
reply
186
views
Broad and Narrow peaks
ATAC
ChIP
seq
updated 2 days ago by
ATpoint
82k • written 2 days ago by
Jacek
▴ 20
0
votes
0
replies
144
views
How can i use ESM-1v ?
VEP
ESM-1v
3 days ago by
Meto
• 0
0
votes
0
replies
156
views
Cell type annotation mixed with other type cells
cell
annotation.
updated 3 days ago by
GenoMax
142k • written 3 days ago by
Long
• 0
0
votes
0
replies
148
views
sci-RNA-seq
cell
single
seurat
sci-rna-seq
counts
3 days ago by
kilcdincer
▴ 10
0
votes
0
replies
163
views
genomic region of transcription factor
search
HOMER
motif
3 days ago by
qudrat.nii
▴ 10
1
vote
5
replies
375
views
Reconstruction of locus, order contigs
contigs
cluster
alignment
locus
updated 3 days ago by
dthorbur
★ 2.0k • written 4 days ago by
BATMAN
• 0
0
votes
6
replies
365
views
ComplexHeatmap - How to change fontsize of rowAnnotation
ComplexHeatmap
3 days ago by
hannes.bongartz
• 0
0
votes
0
replies
148
views
Understanding behaviour of SCTransform in Seurat
Seurat
scRNASeq
normalization
updated 3 days ago by
GenoMax
142k • written 3 days ago by
yura.grabovska
▴ 90
1
vote
1
reply
202
views
constructing pangenome through psvcp
psvcp
pangenome
2 days ago by
analyst
▴ 50
0
votes
4
replies
302
views
What marks a De-Novo Genome assembly as FAILED?
nanopore
denovo
illumina
assembly
genome
updated 17 hours ago by
dthorbur
★ 2.0k • written 4 days ago by
Umer
▴ 50
0
votes
2
replies
256
views
How to generate table_annovar from VCF input?
vcf
annovar
updated 4 days ago by
Pierre Lindenbaum
161k • written 4 days ago by
melissachua90
▴ 70
0
votes
0
replies
134
views
How do I quantify the non-coding transcripts that I have generated after using CPAT,PLEK, and BLAST altogether?
transcript
Quantify
non-coding
4 days ago by
Varsha
• 0
0
votes
1
reply
441
views
solution-Transcriptome.cpp:18:Transcriptome: exiting because of *INPUT FILE* error: could not open input file /geneInfo.tab #2142
STAR
updated 4 days ago by
GenoMax
142k • written 4 days ago by
huxiangyulove
• 0
0
votes
0
replies
153
views
Help interpreting KEGG module definitions for converting to NetworkX graph
definition
kegg
module
database
genomics
4 days ago by
O.rka
▴ 720
0
votes
4
replies
351
views
Merge clusters in Seurat UMAP
seurat
umap
4 days ago by
kilcdincer
▴ 10
0
votes
0
replies
159
views
Use of ichor CNA
Dog
CNA
genome
4 days ago by
sainavyav22
• 0
2
votes
2
replies
284
views
Single-cell ambient RNA correction: SoupX vs decontX contamination fraction
single-cell
ambient-RNA
updated 4 days ago by
Ram
43k • written 4 days ago by
txema.heredia
▴ 130
0
votes
0
replies
162
views
Error when running create-maf-vcf at convertGVCFToHVCFForChrom step - PHGv2
PHG
pangenome
PHG_v2
4 days ago by
Jsarria.EEAD
• 0
0
votes
2
replies
265
views
How can I calculate the OS of each patient?
overall-survival
16 hours ago by
Pedro
• 0
0
votes
0
replies
154
views
cat-bgen fail
bgenix
updated 4 days ago by
Ram
43k • written 4 days ago by
lambard
• 0
1
vote
1
reply
205
views
API kegg - IndexError: list index out of range
kegg
API
updated 4 days ago by
Nyksubuz
▴ 20 • written 5 days ago by
mirwa.zidi93
• 0
0
votes
0
replies
146
views
qPCR gene expression data analysis
qPCR
geneexpression
anova
5 days ago by
ebertomeup
• 0
1,000 results • Page
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C: Filtering A Sam File For Quality Scores
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Comment: How to format "I" and "D" in vcf version 4.2 for liftover analysis in GATK
Comment: How to format "I" and "D" in vcf version 4.2 for liftover analysis in GATK
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diqixiaoyaoer
▴ 20
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Recent Replies
Comment: What is the amount of sequencing data produced annually?
by
Mohamed
• 0
Here's a more neat version of the plot generated while writing my dissertation: ![enter image description here][1] [1]: https://raw.gi…
Comment: In one PCA plot, can I calculate the percentage of different factors that contri
by
marco.barr
▴ 130
what a pity...
Comment: In one PCA plot, can I calculate the percentage of different factors that contri
by
diqixiaoyaoer
▴ 20
Yes, I can. But there are only two factors that affect my data PCA distribution: groups and donor. And the rest is regarded as residual. …
Comment: ICGEB - SLIBTEC NGS Workshop: Won Best Oral Presentation Award
by
colindaven
6.4k
Please delete this as it has nothing to do with the topic of this forum, bioinformatics. Thanks
Comment: Add stats to the plot
by
marco.barr
▴ 130
if don't work try binding the stats without group. stat_data4 <- data4.ts %>% ungroup() %>% t.test(data = ., value ~ Cond…
Comment: Nextflow docker: Error response from daemon
by
Pierre Lindenbaum
161k
you should ask : https://github.com/nf-core/sarek/issues/
Comment: Where to find old version of GATK best practice
by
Pierre Lindenbaum
161k
https://github.com/gatk-workflows ?
Comment: Create a new bed file with all pairwise combinations between two other bed files
by
Alex Reynolds
35k
Hi, if you can please post a separate question with inputs and expected output, reply here with a link to it, and I'll take a look.
Comment: Create a new bed file with all pairwise combinations between two other bed files
by
J
▴ 10
Hi again Alex, sorry to ask another question about this, but how can I tweak this code to keep **all** of the SNPs that pass the threshold …
Comment: how to treat the replicates while performing WGCNA
by
mavy
▴ 10
Hello I have a quick question, I did as you said , and further added the traits, found the correlation among the modules and the traits us…
Comment: Elbow plot question (scRNA seq data analysis - scanpy tutorial)
by
ojaswinipandey
• 0
Thank you so much Dave.
Answer: Elbow plot question (scRNA seq data analysis - scanpy tutorial)
by
Dave Carlson
★ 1.7k
The y axis represents the proportion of the total variance explained by each principal component. It's negative because the value (between…
Comment: Error in using BioSampleParser tool: subscript out of bounds
by
marco.barr
▴ 130
Hi Mohamed, I also thought the same thing but we run the risk of inserting other errors perhaps by modifying the function. I tried but I ha…
Comment: Trimming tool
by
Ram
43k
Please do a few simple Google searches before asking others for help.
Comment: ICGEB - SLIBTEC NGS Workshop: Won Best Oral Presentation Award
by
Ram
43k
This post does not fit the theme of this forum.
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