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12,547 results • Page
1 of 251
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0
votes
0
replies
10
views
Calculated LAI is too large
annotation
LAI
assembly
TE
genome
39 minutes ago by
Yao
▴ 30
1
vote
1
reply
665
views
Herald:
The Biostar Herald for Monday, November 01, 2021
herald
written 2.6 years ago by
Biostar
2.8k
17
votes
10
replies
7.2k
views
7 follow
T2T-CHM13 "complete" human genome gff/gtf annotation file
genomics
written 3.0 years ago by
noodle
▴ 580
0
votes
0
replies
28
views
How to recover the entire sequence from all_contig_annotations.csv?
VDJ
single-cell
TCR-seq
cellranger
10x
2 hours ago by
dawnyipingzou
• 0
799
votes
167
replies
144k
views
109 follow
News:
The Biostar Handbook. A bioinformatics e-book for beginners.
training
handbook
updated 3 months ago by
Biostar
2.8k • written 7.5 years ago by
Istvan Albert
100k
0
votes
1
reply
54
views
Where to find old version of GATK best practice
gatk
updated 2 hours ago by
Pierre Lindenbaum
161k • written 3 hours ago by
Zhenyu Zhang
★ 1.2k
0
votes
1
reply
55
views
Nextflow docker: Error response from daemon
sarek
gatk4
docker
nextflow
updated 2 hours ago by
Pierre Lindenbaum
161k • written 3 hours ago by
Peter Chung
▴ 200
0
votes
0
replies
35
views
News:
Online course- Advanced Python for Life Sciences
Python
MachineLearning
Programming
DataVisualisation
3 hours ago by
carlopecoraro2
★ 2.5k
0
votes
0
replies
45
views
CreateSeuratObject taking very long
seurat
7 hours ago by
eae6d2e7
• 0
0
votes
0
replies
50
views
Multi-ploid data in ANGSD and NGSadmix
ancestry
diploid
haploid
admixture
8 hours ago by
Christopher
• 0
1
vote
2
replies
150
views
Elbow plot question (scRNA seq data analysis - scanpy tutorial)
scanpy
12 hours ago by
ojaswinipandey
• 0
0
votes
1
reply
109
views
Kraken2 Custom Database non-deterministic results
Metagenomics
kraken2
updated 14 hours ago by
GenoMax
142k • written 15 hours ago by
Bjorn
• 0
1
vote
4
replies
241
views
How to find SRA sequences of some fungal whole genome sequences if only Biosample ID is available?
SRA
whole-genome-sequencing
NCBI
updated 14 hours ago by
Ram
43k • written 16 hours ago by
Harshita
• 0
2
votes
4
replies
185
views
Filter Genome for Specific Sites
bedtools
updated 14 hours ago by
Ram
43k • written 16 hours ago by
Anita
• 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
1
vote
1
reply
87
views
Generating Group/Cluster Lists from fastq files
Sequencing
RNA-seq
DNA-Seq
updated 18 hours ago by
GenoMax
142k • written 18 hours ago by
niruf
• 0
0
votes
0
replies
64
views
News:
Online course: Network analysis in Systems Biology with R/Bioconductor
Bioconductor
Systems-Biology
Network-Analysis
R
updated 14 hours ago by
Ram
43k • written 18 hours ago by
carlopecoraro2
★ 2.5k
2
votes
0
replies
90
views
Herald:
The Biostar Herald for Monday, May 20, 2024
herald
19 hours ago by
Biostar
2.8k
1
vote
3
replies
316
views
Super ehancers
enhancers
updated 18 hours ago by
GenoMax
142k • written 19 days ago by
Oburah
• 0
0
votes
0
replies
72
views
vcf phasing
beagle
WhatsHap
phasing
19 hours ago by
safeassli
▴ 10
0
votes
2
replies
176
views
How to generate an Upset plot in R to plot the shared variants between cell free DNA samples
r
Upset
16 hours ago by
sainavyav22
• 0
0
votes
1
reply
585
views
Illumina methylation EPIC V2 array
ewas
methylation
enrichment
missMethyl
EPIC
updated 20 hours ago by
fu_entomology
▴ 40 • written 8 months ago by
juliviglino
• 0
1
vote
2
replies
157
views
How to find identical sequences in genome fasta file (by Python or any possible program) ?
fasta
updated 17 hours ago by
Ram
43k • written 1 day ago by
Sony
▴ 10
0
votes
3
replies
168
views
GATK Structural Variants Pipeline - Steps
SV
GATK
Variant-Calling
updated 19 hours ago by
Ram
43k • written 23 hours ago by
Bioinformatics_begginner
▴ 20
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 17 hours ago by
Ram
43k • written 23 hours ago by
ev97
▴ 20
0
votes
1
reply
116
views
GO analysis: Indicate genes corresponding to the pathway
GeneOntoloy
GO
R
updated 21 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 20 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
119
views
How to deal with possibly important predictors omitted during the building of an OLS multivariant linear regression model?
multivariant-linear-regression
updated 14 hours ago by
Ram
43k • written 1 day ago by
JorgeVallejo
▴ 20
0
votes
0
replies
84
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 17 hours ago by
Ram
43k • written 1 day ago by
mnx0723
• 0
7
votes
14
replies
2.9k
views
6 follow
How to find tandem duplications pattern in a DNA sequence
Repeat
updated 1 day ago by
micah
▴ 30 • written 3.1 years ago by
kumajis
• 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
231
views
GO analysis: p-value range
GO
R
updated 23 hours ago by
Matthias Zepper
4.6k • written 1 day ago by
sooni
▴ 20
1
vote
3
replies
193
views
News:
ICGEB - SLIBTEC NGS Workshop: Won Best Oral Presentation Award
BestTalk
PlatformPresentation
offtopic
updated 1 hour ago by
colindaven
6.4k • written 1 day ago by
Dr.
• 0
0
votes
3
replies
230
views
seqtk subseq in.fastq list.txt > out.fastq not extracting full sequence from input file
subseq
seqtk
extractionproblem
updated 22 hours ago by
GenoMax
142k • written 2 days ago by
KHURRAM SHAHZAD
• 0
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
422
views
Add stats to the plot
R
updated 2 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
1
vote
2
replies
347
views
is there a tool to recover corrupted fastq files
fastq
short-read
updated 1 day ago by
Tommaso
• 0 • written 3 months ago by
pt.taklifi
▴ 60
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
1
reply
160
views
geom_bar issue in ggplot2 with xlim()
geom_bar
ggplot2
statistics
R
updated 1 day ago by
ATpoint
82k • written 1 day ago by
rj.rezwan
• 0
0
votes
2
replies
312
views
Design for complex RNA-Seq experiment using Deseq2
Model.Matrix
RNA-Seq
Limma
DESeq2
edgeR
1 day ago by
Ezequiel
• 0
2
votes
0
replies
182
views
Tool:
Sequence alignment on split read event such as inversion, duplication and complex nested events.
minimap
alignment
NGMLR
2 days ago by
micah
▴ 30
0
votes
0
replies
115
views
problems in installing rDock
rDock
updated 14 hours ago by
Ram
43k • written 2 days ago by
Rodolfo Adrián
• 0
1
vote
6
replies
1.5k
views
CellRanger output more cells than specified using --force-cells? Why?
scRNA-seq
cellranger
updated 2 days ago by
scideas
▴ 30 • written 8 months ago by
rohitsatyam102
▴ 870
1
vote
2
replies
721
views
Checking chromosome builds for genotyping data
GWAS
Liftover
PLINK
updated 2 days ago by
Muhammad
• 0 • written 2.6 years ago by
mari.johnson
• 0
1
vote
1
reply
337
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
12,547 results • Page
1 of 251
Recent Votes
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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A: Generate Vcf.Gz File And Its Index File Vcf.Gz.Tbi
Answer: Elbow plot question (scRNA seq data analysis - scanpy tutorial)
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Answer: Kraken2 database
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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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