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178 results • Page
2 of 4
Sort: Votes
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Votes
Replies
2
votes
4
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351
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Functional enrichment analysis for unique gene IDs
RNA-SEQ
8 hours ago by
Pegasus
▴ 100
2
votes
3
replies
314
views
How do we do quantification using stringtie merge option for all the merged samples generated.
stringtie
quantification
17 hours ago by
Varsha
• 0
2
votes
5
replies
306
views
Z score
Z-score
updated 4 days ago by
Ram
44k • written 4 days ago by
Akash D
▴ 60
2
votes
11
replies
767
views
ComplexHeatmap - How to change fontsize of rowAnnotation
r
ComplexHeatmap
updated 1 day ago by
Ram
44k • written 10 days ago by
hannes.bongartz
• 0
2
votes
2
replies
121
views
How do i calculate the mean of triplicates in a data.frame based on pattern?
tidyverse
r
updated 1 hour ago by
Ram
44k • written 13 hours ago by
Assa Yeroslaviz
★ 1.9k
1
vote
3
replies
241
views
Trimmomatic running but files containing purged reads are empty
fastqc
fastq
trimmomatic
updated 5 days ago by
GenoMax
142k • written 5 days ago by
Wilber0x
▴ 50
1
vote
2
replies
281
views
Trouble with PLINK's logistic regression analysis and covariatesTrouble with PLINK's logistic regression analysis and covariates
PLINK
GWAS
SNP
3 days ago by
F110152169
• 0
1
vote
3
replies
323
views
Error when looping over multiple columns in a data frame in R
Statistics
R
updated 4 days ago by
Jeremy
▴ 910 • written 5 days ago by
Mohamed Samir
▴ 30
1
vote
2
replies
247
views
News:
ICGEB - SLIBTEC NGS Workshop: Won Best Oral Presentation Award
BestTalk
PlatformPresentation
offtopic
updated 6 days ago by
colindaven
6.4k • written 8 days ago by
Dr.
• 0
1
vote
1
reply
94
views
Search within posts based on tags using the Biostars API
api
meta
updated 1 hour ago by
Ram
44k • written 19 hours ago by
Bálint
▴ 10
1
vote
2
replies
316
views
Error when i use EVidenceModeler to do the genome annotation
EVidenceModeler
annotation
genome
2 days ago by
peanut
• 0
1
vote
10
replies
645
views
Add stats to the plot
R
5 days ago by
Ghada
• 0
1
vote
3
replies
295
views
How to calculate cell type frequency between two groups in single cell data
Seurat
single-cell
sc-RNA
cell-type
updated 2 days ago by
Bastien Hervé
5.3k • written 3 days ago by
Sara
▴ 30
1
vote
3
replies
328
views
Filtering VCF files based on VAF giving incorrect results
GATK
picard
VCF
bcftools
updated 6 days ago by
Ram
44k • written 12 days ago by
Arton
▴ 10
1
vote
10
replies
3.6k
views
Merging multiple samples in Seurat
scRNA-seq
snRNA-seq
RNA-seq
Seurat
updated 2 days ago by
Picasa
▴ 640 • written 7 months ago by
AFP3
• 0
1
vote
2
replies
243
views
Construction of circos plot from WGS data
WGS
Circos
3 days ago by
Anitha
▴ 10
1
vote
4
replies
290
views
Genotyping sites with N in reference genome
GATK
UnifiedGenotyper
6 days ago by
shpak.max
▴ 50
1
vote
6
replies
382
views
What marks a De-Novo Genome assembly as FAILED?
nanopore
denovo
illumina
assembly
genome
6 days ago by
Umer
▴ 50
1
vote
2
replies
223
views
Setting a threshold on gene expression for subsetting (scRNA-seq)
scRNA-seq
updated 1 day ago by
LauferVA
4.2k • written 2 days ago by
carolofharvest
▴ 40
1
vote
4
replies
325
views
Single cell analysis: Unable to subset cells in seurat object using desired nFeature_RNA cut off
single-cell
3 days ago by
sc_analysis
• 0
1
vote
3
replies
572
views
Pruning Phylogenetic Trees and Bootstrap Values
phylogenetics
bootstrap
updated 6 days ago by
Klaus S
▴ 160 • written 6 weeks ago by
Zeng Hao
▴ 40
1
vote
3
replies
913
views
Which 1000 genomes 30x files should I use for imputation?
1000genomes
imputation
SNP
updated 5 days ago by
David-walson
• 0 • written 16 months ago by
Apprentice
▴ 160
1
vote
2
replies
396
views
Error in CIBERSORTx ($ operator is invalid for atomic vectors)
CIBERSORTx
cibersort
error
RNA-Seq
deconvolution
updated 6 days ago by
finch
• 0 • written 3 months ago by
star
▴ 10
1
vote
7
replies
397
views
samtools write-index
samtools
1 day ago by
R.L.
• 0
1
vote
2
replies
258
views
Failed to download data from EBI with ascp
EBI
aspera
updated 21 hours ago by
孝中
• 0 • written 6 weeks ago by
biock
▴ 60
1
vote
1
reply
137
views
Cellranger-multi : Demultiplexing and Analyzing 5’ Immune Profiling Libraries Pooled with Hashtags
5InmuneProfiling
nf-core
scRNAseq
cellranger-multi
Nextflow
updated 4 days ago by
GenoMax
142k • written 4 days ago by
azeu
▴ 10
1
vote
3
replies
211
views
Question about samtools view flags (paired reads vs. properly paired reads)
samtools
updated 6 days ago by
Pierre Lindenbaum
162k • written 6 days ago by
mrk
• 0
1
vote
2
replies
155
views
Help me with Heatmap
RNA-seq
R
DESeq2
updated 1 hour ago by
Ram
44k • written 13 hours ago by
vmpsb
• 0
1
vote
4
replies
411
views
some error in building kraken2 database
metagenome
kraken2
updated 4 days ago by
GenoMax
142k • written 4 weeks ago by
Art1ess
• 0
1
vote
2
replies
3.8k
views
How can run cd-hit-est with a clstr threshold less than 0.8?
cd-hit
cluster
updated 18 hours ago by
Asaf
10k • written 6.3 years ago by
m.koohi.m
▴ 120
1
vote
3
replies
209
views
downloading chemical database from ChEMBL
ChEMBL
PyRMD
Virtual-Screening
updated 5 days ago by
GenoMax
142k • written 6 days ago by
s
• 0
1
vote
2
replies
196
views
How can we convert a vcf to fasta, so that I can blast some genes against that whole genome sequences?
blast
fasta
vcf
gene
updated 6 days ago by
Ram
44k • written 6 days ago by
Harshita
• 0
1
vote
1
reply
742
views
Herald:
The Biostar Herald for Monday, November 01, 2021
herald
written 2.6 years ago by
Biostar
2.8k
0
votes
0
replies
85
views
virus genome annotation
annotation
gff3
consensus
NCBI
coding_regions
10 hours ago by
Ghada
• 0
0
votes
2
replies
92
views
identify the coordinate for coding and non_coding region.
coding
non_coding
10 hours ago by
Ghada
• 0
0
votes
0
replies
35
views
The number of region with the motif sequence is different between HOMER outputs
findMotifsGenome
HOMER
annotatePeaks
5 hours ago by
Aki
▴ 20
0
votes
0
replies
31
views
Calculating F_IS, F_IT on ancient DNA
adna
5 hours ago by
devenvyas
▴ 740
0
votes
0
replies
10
views
Funcotator gnomAD incoherent number of output fields
gatk
fields
gnomAD
Funcotator
1 hour ago by
jaime alvarez
▴ 30
0
votes
1
reply
72
views
Help with proteomics downstream analysis
mass-spectrometry
proteomics
updated 1 hour ago by
Ram
44k • written 11 hours ago by
Álvaro
• 0
0
votes
0
replies
25
views
How to Convert CNV Data to CNA Format for Reproducing Results with the Padma Package?
multi-omics
CNV
R
updated 1 hour ago by
Ram
44k • written 3 hours ago by
Ngrin
• 0
0
votes
1
reply
110
views
Salmon vs Kallisto vs RSEM
RSEM
quantification
kallisto
Salmon
updated 1 hour ago by
Ram
44k • written 13 hours ago by
Mohamed Abderrahmane
▴ 20
0
votes
0
replies
82
views
Determining rs ids from SNP HGV base ID?
rsID
HGV
SNP
updated 1 hour ago by
Ram
44k • written 1 day ago by
Katherine
• 0
0
votes
0
replies
101
views
News:
Online course: Population Genomic Inference from Low-Coverage Whole-Genome Sequencing Data
Genotype-Likelihoods
Low-Coverage
Population-Genomics
ANGSD
updated 1 hour ago by
Ram
44k • written 1 day ago by
carlopecoraro2
★ 2.5k
0
votes
1
reply
55
views
Error with Pheatmap ()
r
deseq2
updated 1 hour ago by
Ram
44k • written 5 hours ago by
vmpsb
• 0
0
votes
1
reply
125
views
Nextflow docker: Error response from daemon
sarek
gatk4
docker
nextflow
updated 6 days ago by
Pierre Lindenbaum
162k • written 6 days ago by
Peter Chung
▴ 200
0
votes
1
reply
24
views
Salmon ~ Effective Length
Salmon
updated 40 minutes ago by
Rob
6.6k • written 1 hour ago by
chrisk
• 0
0
votes
0
replies
95
views
How to recover the entire sequence from all_contig_annotations.csv?
VDJ
single-cell
TCR-seq
cellranger
10x
6 days ago by
dawnyipingzou
• 0
0
votes
0
replies
93
views
Calculated LAI is too large
annotation
LAI
assembly
TE
genome
6 days ago by
Yao
▴ 30
0
votes
0
replies
94
views
Last step of metagenome analysis before visualization
metagenome
python
analyis
6 days ago by
Ayda Ecem
• 0
0
votes
1
reply
141
views
DRAGEN gVCF files and joint calling GATK-GenomicsDB
DRAGEN
GenomicsDB
updated 6 days ago by
DBScan
▴ 310 • written 6 days ago by
brunomiwa
• 0
178 results • Page
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Recent Replies
Answer: Salmon ~ Effective Length
by
Rob
6.6k
Salmon will compute the fragment length distribution based on the (probabilistically weighted) implied distance between the fragment ends g…
Comment: Error with Pheatmap ()
by
Ram
44k
Show us the output to ```r mat.z[1:10,1:10] any(is.infinite(mat.z)) ```
Answer: Search within posts based on tags using the Biostars API
by
Ram
44k
AFAIK there's a POST-based tag API but it has problems. I created an issue on GitHub a while ago on this topic: https://github.com/ialbert/…
Comment: Delete some INFO header lines and columns data
by
tomas4482
▴ 400
This code will NOT work. Please use `bcftools annotate -x ^INFO/RPBZ,INFO/MQBZ,INFO/BQBZ in.vcf.gz > out.vcf` instead. Prior to this st…
Answer: Help with proteomics downstream analysis
by
Nat.Nataren
▴ 10
I would be contacting the company as a start, and getting access to your raw data.
Comment: txt file to bigwig
by
ATpoint
82k
Please stop asking questions in existing threads. Delete these two comments and open a new question with all the necessary details to under…
Comment: Venter Genome Vcf
by
Jeremy Leipzig
22k
there are some violations in this VCF: - Invalid count number, with fixed count the number should be 1 or higher: key=INFO name=TSA type=St…
Comment: Cut&Run and heatmap
by
sogand
• 0
Hi all, I am new to cut&run or any peak-related analysis and appreciate any guidance on my issue here: I have analyzed peakcalling .txt …
Comment: Functional enrichment analysis for unique gene IDs
by
Pegasus
▴ 100
Since the locus-tags are unclassified, I used the CDS instead of the locus-tags to retrive their ensembl IDs using ensembl bacteria website…
Comment: samtools mpileup error - 1 samples in 1 input files
by
Damla
• 0
Could you find a solution to your problem?
Comment: txt file to bigwig
by
sogand
• 0
Hi all, I am new to these kind of analysis and appreciate any guidance on my issue here: I have analyzed peakcalling .txt files that are r…
Answer: Help me with Heatmap
by
MolGeek
▴ 50
Hello! So, what is the correct design ? You will have to ask yourself, what do you want to compare? WT vs mut? If so it will be strain. 2…
Answer: Help me with simple data for RNA seq
by
swbarnes2
14k
1) you have to say what question you are actually asking. There are few different designs that would address different questions. 2) work…
Comment: identify the coordinate for coding and non_coding region.
by
Ghada
• 0
mmmm I am not sure. This is how I generate my consnsus sequence # Get consensus fastq file samtools mpileup -uf KT992094.1.fasta…
Comment: identify the coordinate for coding and non_coding region.
by
GenoMax
142k
Why do you have those N's at the beginning of the sequence? If the remainder of the sequence matches 100% then the initial N's may be wrong…
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