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335 results • Page
4 of 7
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Votes
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0
votes
0
replies
876
views
For people doing high molecular weight DNA sequencing library prep, do you see a steep drop off in the fragment sizes before and after the library pr…
library-prep
sequencing
ont
nanopore
ngs
16 days ago by
Mark
• 0
0
votes
0
replies
696
views
Generating variant read count matrix, total read count matrix and binary/ternary mutaion matrix for SNV from scDNAseq FASTQ files
SNV
mutationMatrix
tumorPhylogeny
scDNAseq
mutaion
1 day ago by
supernovamik
• 0
0
votes
0
replies
124
views
Population study based on metaT and MetaG
metagenome
metatranscriptome
study
population
updated 8 days ago by
GenoMax
136k • written 9 days ago by
PierreGT
• 0
0
votes
0
replies
108
views
RNA secondary structure for GRCH38 transcriptome
dot-bracket-notation
human
RNA-secondary-structure
GRCH38
3 days ago by
Saad Khan
▴ 420
0
votes
0
replies
106
views
Differentiate sequenced and imputed variants in BGEN files
imputation
bgen
ukb
11 days ago by
user230613
▴ 350
0
votes
0
replies
118
views
Interpretation of mean-variance trend in voom
EdgeR
Voom
updated 16 days ago by
Ram
41k • written 17 days ago by
Ivana
• 0
0
votes
7
replies
436
views
Using Primer3 with python to genotype a SNP at a particular position
primer3
python
position
primer
updated 21 days ago by
Pierre Lindenbaum
158k • written 22 days ago by
Keith
• 0
0
votes
2
replies
226
views
how to use pilon
genome
pipelines
assembly
pilon
contig
updated 10 days ago by
Arup Ghosh
3.2k • written 16 days ago by
vasudhapai
• 0
0
votes
2
replies
340
views
How to perform liftover from 38 to 37 in R?
R
genomics
hail
liftover
gwas
19 days ago by
DN99
▴ 20
0
votes
1
reply
233
views
htShinyExample-5.3 - not working
htShiny
Oncoprint
InteractiveComplexHeatmap
updated 8 days ago by
Ram
41k • written 14 days ago by
bioinfo
▴ 60
0
votes
5
replies
163
views
Differential expression using Bowtie2
Transcriptome
Bowtie
Differential-expression
updated 42 minutes ago by
ATpoint
78k • written 19 hours ago by
8d8fc19e
• 0
0
votes
4
replies
322
views
Query regarding callsets used as known sites in Variant Calling
GATK
VCF
19 days ago by
Shruti Baikerikar
• 0
0
votes
3
replies
297
views
Jellyfish problem with Failed to open input file 'reads.jf'
jellyfish
kmer
fastq
16 days ago by
m.t.lorenc
• 0
0
votes
0
replies
130
views
coupling Cufflinks results with RSEM
transcript-level-quantification
RSEM
transcriptome-assembly
Cufflinks
17 days ago by
sofiablancoglez
• 0
0
votes
2
replies
154
views
How to perform quality control for sex when there are no variants after thresholding for MAF
sex
check
genetics
15 hours ago by
kl
▴ 10
0
votes
0
replies
169
views
Bedtools coverage -hist "all" in chr column
-hist
Coverage
option
breadth
Bedtools
21 days ago by
Smriti
▴ 10
0
votes
0
replies
118
views
Should I perform eQTL colocalization for just one of eGenes at a time?
colocalization
coloc
eCaviar
eQTL
5 days ago by
maximal_life
▴ 20
0
votes
1
reply
223
views
Seeking Advice on Validating RNA-Seq Data Before Differential Analysis
RNA-Seq
updated 18 days ago by
ATpoint
78k • written 18 days ago by
Tully
• 0
0
votes
0
replies
160
views
Significance of several BUSCO target IDs for the same gene
target_id
sequence-ontology
BUSCO
duplication
7 days ago by
CoLa
• 0
0
votes
0
replies
118
views
MUSCLE Protein Alignment of Distantly Related Proteins
muscle
protein
alignment
9 days ago by
Richard Fontaine
• 0
0
votes
3
replies
309
views
Can FPKM be used to create bar graphs for DEGs?
RNA-seq
updated 3 days ago by
Ram
41k • written 21 days ago by
junli1988
• 0
0
votes
1
reply
452
views
Loftee no splice site annotations
Loftee
VEP
updated 7 days ago by
AMARU
• 0 • written 21 months ago by
Filago
▴ 90
0
votes
0
replies
162
views
not best k value found
de
assemblly
assembly
novo
kmergenie
14 days ago by
shaileshdesai76
• 0
0
votes
2
replies
281
views
Creating a Variant containing FASTA for proteomics search from VCF and genomic FASTA
translation
Variant
proteomics
FASTA
VCF
15 days ago by
chscho
• 0
0
votes
0
replies
144
views
Deconvolution using cibersortx, help with real example
deconvolution
cibersortx
21 days ago by
Dyno
• 0
0
votes
0
replies
52
views
how to label Histological regions on the H&E images in 10x visium H&E images
region
transcriptome
label
spatial
8 hours ago by
naodaigua_weng
• 0
0
votes
1
reply
145
views
error in plink
polygenicriskscore
prscalculation
prs
plink
error
updated 16 days ago by
biofalconch
★ 1.1k • written 16 days ago by
Emilija
• 0
0
votes
0
replies
90
views
cosinoRmixedeffect: an R package for mixed-effects cosinor models
interactionmodel
cosinor
mixedeffect
circadian
1 day ago by
Agnia
• 0
0
votes
0
replies
110
views
Does breadth of coverage signify expression?
Coverage
breadth
Bedtools
Expression
count
10 days ago by
Smriti
▴ 10
0
votes
0
replies
178
views
TSSAR and TSSpredator
sRNA
TSS
19 days ago by
Sado
• 0
0
votes
0
replies
149
views
Osmotic permeability of water transport in aquaporins
permeability
Osmotic
transport
Water
7 days ago by
Peerzada
• 0
0
votes
0
replies
126
views
Low mapping after Cufflinks assembly
assembly
gffread
cuffmerge
Cufflinks
RSEM
16 days ago by
sofiablancoglez
• 0
0
votes
0
replies
176
views
Handling male samples chrX vcf genotype from 1000G high-coverage 30x
chrX
1000G
vcf
male
genotype
21 days ago by
Pau
• 0
0
votes
3
replies
382
views
Bowtie2 Error: reads file does not look like a FASTQ file
bowtie2
alignment
updated 28 days ago by
ATpoint
78k • written 3 months ago by
SO_Bio
• 0
0
votes
0
replies
172
views
Multi-mapped reads in Ribo-Seq data, discard or keep?
STAR
ribo-seq
multi-mapped
rna-seq
TE
14 days ago by
Carmen
• 0
0
votes
0
replies
120
views
GATK SelectVariants --remove-unused-alternates dropping real INDELs?
GATK
25 days ago by
benformatics
3.8k
0
votes
2
replies
203
views
standalone blastx of queries without NR annotations
miRNA
lncRNA
22 days ago by
analyst
▴ 10
0
votes
0
replies
114
views
WGCNA for different tissues
WGCNA
Worms
RNA-Seq
2 days ago by
kdca
• 0
0
votes
2
replies
249
views
Bcftools
bcftools
vcf
updated 21 days ago by
Ram
41k • written 22 days ago by
kamila.temirkhanova
• 0
0
votes
3
replies
291
views
Viral genes not showing up in combined mouse+virus alignment
RNAseq
8 days ago by
cook.675
▴ 210
0
votes
2
replies
229
views
biomaRt Ensembl version 83 (mouse)
Ensembl
biomaRt
updated 29 days ago by
Ram
41k • written 29 days ago by
Marie-Michelle
• 0
0
votes
1
reply
226
views
Error with HTseq RNAseq read count
RNAseq
HTseq
updated 21 days ago by
GenoMax
136k • written 21 days ago by
Catalina
• 0
0
votes
3
replies
262
views
merged rs number information
merged
dbsnp
10 days ago by
sskimvd
• 0
0
votes
0
replies
118
views
Classification ML model using different type of data
machine-learning
transcriptomics
R
python
biomarkers
3 days ago by
sil_bioinfo
▴ 40
0
votes
0
replies
120
views
Merging multiple DCC objects from multiple DSP runs
Spatial
transcriptomics
batches
DCC
GeoMx
22 days ago by
Pac314
▴ 10
0
votes
0
replies
116
views
jellyfish histo is empty
jellyfish
kmer
fastq
16 days ago by
m.t.lorenc
• 0
0
votes
0
replies
176
views
How to perform analysis with given copy number variation datasets between disease and control cohorts
CNV
analysis
17 days ago by
Tsin-Lau
• 0
0
votes
0
replies
148
views
very long variants in VCF after giraffe alignment
giraffe
vg
alignment
vcf
updated 29 days ago by
Ram
41k • written 4 weeks ago by
מיכל
• 0
0
votes
7
replies
1.6k
views
CIBERSORTx error: 'x' must be an array of at least two dimensions
matrix
CIBERSORTx
signature
updated 21 days ago by
kkj3083
• 0 • written 17 months ago by
Jie
• 0
0
votes
2
replies
304
views
Identifying a gene
1
updated 23 days ago by
Matthias Zepper
4.2k • written 26 days ago by
mustafa_aljadi
▴ 10
335 results • Page
4 of 7
Recent Votes
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Comment: gatk SelectVariants is giving dupilicate allele error while extracting SNPs out
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Check how many variants you have without filtering for MAF, maybe use a MAF of 0.01? You could try the --impute-sex **ycount** or **y-only*…
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Thanks @Pierre this is great to know, although it doesn't solve my issue of this being R-self-contained. rsamtools doesn't seem to carry fu…
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Ok, thanks for letting me know. What would you do if you wanted to compare differential expression of a gene across tissues from RNA-seq da…
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Please contact the UniProt helpdesk whenever you find such annotations, especially in these cases where the GO evidence/source tag says "Un…
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