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186 results • Page
1 of 4
Sort: replies
Rank
Views
Votes
Replies
9
votes
23
replies
9.8k
views
Tool:
BioLabDonkey - new Mac program for molecular biologists
software
biolabdonkey
16 hours ago by
vytarasov
▴ 180
10
votes
16
replies
17k
views
7 follow
How Can I Count Snps In My Final Vcf Files
SNP
updated 4 days ago by
Pierre Lindenbaum
161k • written 5.8 years ago by
mostafarafiepour
▴ 180
13
votes
14
replies
835
views
High Malat-1 expression in single cell data
single-cell
updated 3 days ago by
t.montserrat.ayuso
▴ 40 • written 12 days ago by
carolofharvest
▴ 40
10
votes
14
replies
682
views
6 follow
Bacterial plasmid analysis
bacteria
plasmid
wgs
hybridassembly
sequencing
updated 4 days ago by
GenoMax
142k • written 10 days ago by
nicole.kavanagh
• 0
9
votes
13
replies
4.8k
views
Custom Reference panel creation for data imputation from .vcf files
imputation
reference panel
updated 1 day ago by
analyst
▴ 50 • written 6.4 years ago by
David_emir
▴ 490
4
votes
12
replies
4.8k
views
10 follow
How to analyze Infinium Mouse Methylation BeadChip array data?
Methylation
Experience
Illumina
Mouse
updated 2 days ago by
Tawny
▴ 180 • written 3.0 years ago by
julia_geh
▴ 20
2
votes
12
replies
2.7k
views
6 follow
CNVKIT - unable to produce scatter and diagram pdfs
cnvkit
updated 3 days ago by
Anitha
• 0 • written 4.8 years ago by
ww22runner
▴ 60
1
vote
11
replies
5.5k
views
Truncated Bam Error
R
next-gen
sequencing
software error
updated 6 days ago by
guanghao
• 0 • written 6.1 years ago by
vivekruhela
▴ 20
0
votes
10
replies
346
views
In IGV is this a heterogeneous mutation or false call?
mutations
IGV
heterogeneous
updated 1 day ago by
swbarnes2
14k • written 1 day ago by
Tuck898
• 0
1
vote
10
replies
866
views
error to run rnammer
phylogenomics
rRNA_extraction
rnammer
updated 5 days ago by
antonio.spl
• 0 • written 4 months ago by
microorganism_001
▴ 30
1
vote
9
replies
346
views
UMI-Tools knee-method has great influence on the results of white list
single-cell
whitelist
UMI
RNA
UMI-Tools
updated 1 day ago by
i.sudbery
19k • written 4 days ago by
Assa Yeroslaviz
★ 1.8k
0
votes
9
replies
1.5k
views
kinannote software installation problems
kinannote
updated 3 days ago by
Emanoelle
• 0 • written 5.7 years ago by
Elizabeth
▴ 30
0
votes
8
replies
366
views
Different output for read length
samtools
BAM
2 days ago by
marco.barr
▴ 100
3
votes
8
replies
537
views
How to access TCGA samples that were treated with a specific drug?
TCGA
RNA-seq
5 days ago by
Qroid
▴ 40
3
votes
8
replies
623
views
Spike-in control found in raw reads (16S amplicon seq) but not picked up by DADA2 - where to go from here?
nf-core
16S
amplicon
dada2
ampliseq
updated 5 days ago by
Chris Dean
▴ 410 • written 9 days ago by
sovrappensiero
▴ 100
1
vote
7
replies
495
views
Question regarding WGCNA
WGCNA
Network-construction
2 days ago by
deepak
• 0
0
votes
7
replies
473
views
Applying the metacell2 algorithm using python
python
single-cell
scanpy
metacell2
updated 3 days ago by
Wayne
★ 2.0k • written 5 days ago by
JACKY
▴ 140
1
vote
7
replies
509
views
Filtering Multi-sample VCF file for all except one Genotype
variant
SNP
VCF
updated 1 day ago by
Pierre Lindenbaum
161k • written 4 days ago by
schmince
• 0
9
votes
7
replies
7.1k
views
Align paired and unpaired reads simultaneously using Bowtie2?
alignment
updated 17 hours ago by
Ruqaiya
• 0 • written 5.7 years ago by
xiaozhongzhiping
▴ 20
4
votes
6
replies
3.8k
views
How to interpret DEXseq results in therms of significance
DEXseq
RNA-Seq
exon
updated 5 days ago by
Sara
▴ 30 • written 6.7 years ago by
Lila M
★ 1.2k
5
votes
6
replies
136
views
Longest transcript variant per gene
transcript
longest
variant
orthofinder
updated 2 hours ago by
Mathew
▴ 80 • written 8 hours ago by
sansan_96
▴ 90
4
votes
6
replies
1.2k
views
Soft-clipping read ends based on read group
ancient
molecule
at
bam
DNA
RG
ends
clipping
damage
updated 3 days ago by
chenl
▴ 10 • written 2.5 years ago by
Martyna
• 0
0
votes
6
replies
2.1k
views
Copy number Variation analysis using conumee
R
software error
sequencing
genome
updated 2 days ago by
GenoMax
142k • written 3.2 years ago by
gs000095
▴ 10
6
votes
6
replies
1.8k
views
agilent human all exon sureselct v7 bed file
exon
human
bed
v7
agilent
all
sureselect
updated 6 days ago by
MiladAD
▴ 10 • written 24 months ago by
soheil
• 0
1
vote
6
replies
693
views
anRichment is missing
WGCNA
anRichment
updated 5 days ago by
GenoMax
142k • written 6 months ago by
michael.flower.14
▴ 180
2
votes
5
replies
2.5k
views
identifying transgene insertion site in WGS
WGS
insertion site
trangene
de-novo
soap
updated 3 days ago by
Cameron.walker9900
• 0 • written 5.1 years ago by
Assa Yeroslaviz
★ 1.8k
2
votes
5
replies
398
views
install package: package ‘gmwm’ is not available for this version of R
r
updated 5 days ago by
Ram
43k • written 6 days ago by
snajafy
• 0
1
vote
5
replies
321
views
install.packages("imudata") - package ‘imudata’ is not available for this version of R
r
updated 5 days ago by
Ram
43k • written 5 days ago by
snajafy
• 0
0
votes
5
replies
236
views
Percentage coverage of reference genome by de novo genome
SAMtools
BWA
alignment
ddRAD
updated 3 days ago by
Joe
21k • written 3 days ago by
Lemonhope
• 0
2
votes
5
replies
326
views
Importing a fastq file
Fastq
updated 2 days ago by
size_t
▴ 120 • written 2 days ago by
oumo
• 0
1
vote
5
replies
337
views
Comparative Analysis of Algorithms for Implementing the FM-Index: Correctness, Complexity, and Use Cases
fmindex
bwt
updated 3 days ago by
Michael
54k • written 4 days ago by
qwertyuiop26
• 0
5
votes
5
replies
280
views
Error in dimnames(x) <- dn : length of 'dimnames' [2] not equal to array extent
EGSEA
4 days ago by
Chris
▴ 280
0
votes
5
replies
223
views
Too many unpaired forward reads found by Trimmomatic
Trimmomatic
1 day ago by
SilhouetteQ
• 0
3
votes
5
replies
337
views
RNA seq analysis
DESeq
RNA-seq
1 day ago by
prifa
▴ 10
0
votes
5
replies
284
views
A question about reference genome for creating the consensus sequence
fasta
fa
cram
genome
3 days ago by
me
• 0
4
votes
5
replies
3.4k
views
How to compare compare two Sam files to check mapping
alignment
updated 3 days ago by
DavidStreid
▴ 90 • written 6.4 years ago by
madhu.9124
▴ 60
1
vote
5
replies
413
views
HCL database download
HCL
updated 4 days ago by
Ram
43k • written 8 days ago by
sooni
▴ 20
1
vote
4
replies
364
views
Understanding STAR output (Aligned.out.sam file)
STAR
paired-end
read
4 days ago by
heelpPlease
• 0
0
votes
4
replies
227
views
Is it Possible to "Merge" data from Replicates within a VCF SNP File
snp
vcf
plink
bioinformatics
genomics
10 hours ago by
ajbarrett98
• 0
6
votes
4
replies
12k
views
Trimmomatic: What is the difference between paired and unpaired output files in paired-end mode
trimmomatic
paired-end
updated 18 hours ago by
Ruqaiya
• 0 • written 6.4 years ago by
dllopezr
▴ 130
3
votes
4
replies
4.0k
views
FarmCPU - how to explain the reported 'effect'?
gwas
updated 3 days ago by
chloek88
• 0 • written 5.5 years ago by
Philipp Bayer
8.4k
1
vote
4
replies
390
views
Can I readmap short reads to rDNA references?
rDNA
assembly
updated 1 day ago by
GenoMax
142k • written 24 days ago by
aniigodwinn
• 0
3
votes
4
replies
428
views
Design matrix Differential expression analysis
RNA-seq
Differential-expression
updated 5 days ago by
Gordon Smyth
★ 7.1k • written 8 days ago by
SHN
▴ 40
1
vote
4
replies
291
views
Contig assembly task, errors
genetics
contig
assembly
dna
bioinformatics
1 day ago by
rackbersingh
• 0
2
votes
4
replies
716
views
Count all variants from vcf file
variants
vcf
Count
updated 4 days ago by
Pierre Lindenbaum
161k • written 20 months ago by
t.ali
• 0
3
votes
4
replies
270
views
Truncated metadata file report from ENA Portal API
ena
python
1 day ago by
Giulia
• 0
0
votes
4
replies
394
views
Highest variable features in single cell data
single-cell
4 days ago by
carolofharvest
▴ 40
1
vote
4
replies
480
views
cellranger error message
multiplexing
cellranger
updated 1 day ago by
Max
• 0 • written 3 months ago by
Alivia
▴ 10
0
votes
4
replies
263
views
Correlation Analysis
statistics
methylation
NGS
expression
21 hours ago by
Researcher
▴ 30
2
votes
3
replies
309
views
Problem with Seurat package in PercentageFeatureSet function
cell
single
updated 2 days ago by
bk11
★ 2.4k • written 6 days ago by
Yoosef
▴ 60
186 results • Page
1 of 4
Recent Votes
Comment: Longest transcript variant per gene
Answer: Longest transcript variant per gene
Answer: Longest transcript variant per gene
Comment: Longest transcript variant per gene
Comment: Longest transcript variant per gene
Answer: install package
Answer: error in fun(x((i)), ...) : only defined on a data frame with all numeric alike
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Recent Replies
Answer: input file in rmats
by
Mathew
▴ 80
Hi, In the example they give in their GitHub (https://github.com/Xinglab/rmats-turbo/blob/v4.3.0/README.md): They have 2 sample groups wi…
Comment: Longest transcript variant per gene
by
Mathew
▴ 80
I'm glad it worked well for you! Good luck with the rest of your project. I wish you the best.
Comment: Longest transcript variant per gene
by
sansan_96
▴ 90
Thanks so much
Comment: Longest transcript variant per gene
by
sansan_96
▴ 90
Hello again, It works very well, thank you very much for this solution.
Comment: Longest transcript variant per gene
by
sansan_96
▴ 90
Hello Mathew, Thanks for your answer, I'll try it and come back.
Answer: Longest transcript variant per gene
by
Mathew
▴ 80
Hi, why not write code to extract the longest variant? I copied these two in a txt file called "input.txt", and made three dummy variants …
Comment: Longest transcript variant per gene
by
GenoMax
142k
https://www.biostars.org/p/107759/<br> https://www.biostars.org/p/403649/ <!-- this is it -->
Answer: Kraken2 database
by
Mathew
▴ 80
Sorry, what analysis are you trying to perform with these databases? Based on your question, it appears you are using Kraken2 and Bracken.…
Comment: error in fun(x((i)), ...) : only defined on a data frame with all numeric alike
by
Mathew
▴ 80
I looked up a publication using CIBERSORT to see how they got the package, and indeed they acquired it through official website application…
Comment: Adata.raw.X in LIANA, something wrong with conversion from Seurat to adata in py
by
fracarb8
★ 1.6k
If you are using R, you should check the liana R implementation (https://github.com/saezlab/liana).
Comment: Is it Possible to "Merge" data from Replicates within a VCF SNP File
by
ajbarrett98
• 0
Thank you Pierre, I am going to take some time to get my head around this and report back if it works.
Comment: Is it Possible to "Merge" data from Replicates within a VCF SNP File
by
ajbarrett98
• 0
Thanks for the crosspost! Just trying to get things figured out.
Answer: error in fun(x((i)), ...) : only defined on a data frame with all numeric alike
by
ATpoint
82k
To the best of my knowledge, CIBERSORT is and has always and only been available via the official website application from Stanford. Whatev…
Comment: BioLabDonkey - new Mac program for molecular biologists
by
vytarasov
▴ 180
Update of BioLabDonkey - Version 5.6 - In silico PCR function is added.
Comment: Is it Possible to "Merge" data from Replicates within a VCF SNP File
by
Pierre Lindenbaum
161k
cross posted: https://stackoverflow.com/questions/78462732/ > Please mind that posting the same question to multiple sites can be perceive…
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