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117,155 results • Page
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Salmon ~ Effective Length
Salmon
updated 40 minutes ago by
Rob
6.6k • written 1 hour ago by
chrisk
• 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
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
70
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 59 minutes ago by
Ram
44k • written 2 hours ago by
Ngrin
• 0
0
votes
0
replies
31
views
Calculating F_IS, F_IT on ancient DNA
adna
4 hours ago by
devenvyas
▴ 740
0
votes
1
reply
55
views
Error with Pheatmap ()
r
deseq2
updated 50 minutes ago by
Ram
44k • written 4 hours ago by
vmpsb
• 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
3
votes
3
replies
814
views
Cut&Run and heatmap
and
bowtie2
MACS2
updated 7 hours ago by
sogand
• 0 • written 13 months ago by
qudrat.nii
▴ 10
3
votes
10
replies
5.2k
views
6 follow
txt file to bigwig
MEME
bigwig
updated 6 hours ago by
ATpoint
82k • written 8.6 years ago by
tanni93
▴ 50
801
votes
167
replies
144k
views
109 follow
News:
The Biostar Handbook. A bioinformatics e-book for beginners.
training
handbook
updated 4 months ago by
Biostar
2.8k • written 7.5 years ago by
Istvan Albert
100k
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
0
votes
2
replies
92
views
identify the coordinate for coding and non_coding region.
coding
non_coding
10 hours ago by
Ghada
• 0
64
votes
25
replies
57k
views
22 follow
Download All The Bacterial Genomes From Ncbi
ncbi
updated 10 hours ago by
GenoMax
142k • written 11.4 years ago by
rehma.ar
▴ 290
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
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
85
views
virus genome annotation
annotation
gff3
consensus
NCBI
coding_regions
10 hours ago by
Ghada
• 0
2
votes
6
replies
2.2k
views
Tool:
Python script to query GeneCards to get EntrezID, symbol from Ensembl geneID
biomart
annotation
Ensembl
updated 12 hours ago by
Mike Smith
★ 2.0k • written 2.8 years ago by
Shred
★ 1.4k
0
votes
0
replies
78
views
Subset of Transcripts- How do I proceed with it?
Stringite
Quantification
17 hours ago by
Varsha
• 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
0
votes
2
replies
223
views
Tools for chromosomal aneuploidy detection
genetics
aneuploidy
NGS
human
updated 18 hours ago by
a.alnawfal.1992
▴ 260 • written 4 days ago by
adarsh_pp
▴ 40
0
votes
0
replies
65
views
PyRMD
Virtual
Screening
learning
cheminformatics
machine
19 hours ago by
s
• 0
3
votes
4
replies
205
views
Invalid CIGAR after using bam clipOverlap
validatesamfile
cigar
bam
clipoverlap
19 hours ago by
MboiTui
▴ 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
3
replies
253
views
How to add Ensembl ids after Pseudobulk analysis by DESeq2
Seurat
Pseudobulk
single-cell
DESeq2
scRNA
updated 14 hours ago by
ATpoint
82k • written 2 days ago by
Sara
▴ 30
0
votes
1
reply
159
views
Facing problem with single cell rna seq annotation using singleR
annotation
singleR
scRNAseq
updated 1 day ago by
jared.andrews07
★ 17k • written 1 day ago by
sc_analysis
• 0
0
votes
0
replies
73
views
Imputed data doesn't match directly genotyped APOE genotype
APOE
directgenotyping
imputation
1 day ago by
kl
▴ 10
0
votes
0
replies
88
views
Tubemap multiseq
vg
1 day ago by
karciharun42
• 0
5
votes
3
replies
5.8k
views
Attempt to set 'rownames' on an object with no dimensions
R
microbiome
spieceasi
updated 1 day ago by
GenoMax
142k • written 3.6 years ago by
ks.sholohova
▴ 30
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
173
views
How to decrease the motif score?
scores
Motif
updated 19 hours ago by
ATpoint
82k • written 2 days ago by
Hadia
• 0
0
votes
0
replies
124
views
immuCell Abundance infiltrate
ImmuCell
Abundance
infiltrate
updated 2 days ago by
Pierre Lindenbaum
162k • written 2 days ago by
elbakri.fatimazahrae
• 0
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
0
votes
0
replies
122
views
MaxEntScan for rMATS results
MaxEntScan
rMATS
2 days ago by
adi.gershon1
• 0
0
votes
0
replies
376
views
ERROR with Maker annotation: The assumed RepeatMasker installation directory /opt/home/sony/miniconda3/envs/MAKER2/share/RepeatMasker does not ap…
RepeatMasker.
MAKER.
annotation.
2 days ago by
Sony
▴ 10
0
votes
0
replies
136
views
Trouble with PLINK's logistic regression analysis and covariatesTrouble with PLINK's logistic regression analysis and covariates
PLINK
GWAS
SNP
2 days ago by
F110152169
• 0
4
votes
2
replies
234
views
Number of non-ATCG nucleotides replaced by Salmon
rna-seq
stringtie
salmon
updated 1 hour ago by
Ram
44k • written 3 days ago by
Tonya S.
▴ 10
0
votes
3
replies
366
views
Tool:
Introducing NovaDemux, a Sequence Demultiplexer that Increases Yield and Salvages Failed Runs
NovaDemux
NovaSeq
Illumina
Demultiplexing
Barcode
3 days ago by
Brian Bushnell
20k
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
0
votes
2
replies
226
views
perl Error - needLargeMem Bigwig
Bigwig
perl
mitosalt
16 hours ago by
marco.barr
▴ 130
0
votes
0
replies
146
views
Duplicates of the same gene in Orthogroup sequence files
orthofinder
3 days ago by
niconps14
• 0
3
votes
5
replies
380
views
How to scrape BioMart data from https://sorfs.ugent.be/ website
BioMart
updated 1 day ago by
Pierre Lindenbaum
162k • written 3 days ago by
QX
• 0
2
votes
6
replies
423
views
Harmony integration group.by.var parameter
single-cell
harmony
updated 1 day ago by
jared.andrews07
★ 17k • written 3 days ago by
Picasa
▴ 640
2
votes
1
reply
207
views
Why some SNP's allele frequencies in gnomAD are so different between v2 and v4?
AF
gnomAD
SNP
updated 3 days ago by
Jeremy Leipzig
22k • written 3 days ago by
liaotsungjen
▴ 10
0
votes
0
replies
139
views
Exon Annotation failed using homer annotatePeaks.pl
homer
alternative-splicing
annotatePeaks
updated 3 days ago by
Ram
44k • written 3 days ago by
Alessia
• 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
0
votes
1
reply
183
views
Mutation counts corrected by number of samples
mutations
WES
genomics
WGS
updated 3 days ago by
Ram
44k • written 3 days ago by
garcesj
▴ 50
0
votes
1
reply
3.0k
views
bfctools merge [E::hts_open_format] Failed to open file
SNP
updated 3 days ago by
Ram
44k • written 3.6 years ago by
andemexoax
• 0
0
votes
1
reply
399
views
LDhat lookup table
LDhat
updated 3 days ago by
Ram
44k • written 11 months ago by
Matteo
▴ 10
0
votes
1
reply
203
views
BAM to Bedgraph creating an empty file
Bisulfite-seq
bismark
updated 15 hours ago by
raphael.B
▴ 520 • written 3 days ago by
irebekah.c
• 0
117,155 results • Page
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Comment: bbmerge (bbmap) ~ error with insert size file output
Comment: bbmerge (bbmap) ~ error with insert size file output
Answer: Help me with simple data for RNA seq
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GWAS analysis tool
Answer: Cut&Run and heatmap
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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/…
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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
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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…
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by
sogand
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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 …
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Since the locus-tags are unclassified, I used the CDS instead of the locus-tags to retrive their ensembl IDs using ensembl bacteria website…
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by
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• 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
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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…
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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
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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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