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212 results • Page
3 of 5
Sort: replies
Rank
Views
Votes
Replies
1
vote
1
reply
243
views
Libraries with different size in the same MiniSeq cartridge
Illumina
MiniSeq
UMI
updated 2 days ago by
Ram
38k • written 11 months ago by
MH85
• 0
0
votes
1
reply
1.6k
views
size (how many amino acids) are cytosolic or extracellular in membrane protein
protein
updated 2 days ago by
Ram
38k • written 5.6 years ago by
mabohawya
• 0
4
votes
1
reply
2.9k
views
How Do I Get A Gff Files Or Make My Own For A Bacteriophage?
gtf
gff
updated 2 days ago by
Ram
38k • written 10.0 years ago by
joaslucas
▴ 90
0
votes
1
reply
683
views
sleuth fails with unusual error
snakePipes
Sleuth
updated 6 days ago by
Ram
38k • written 3.1 years ago by
arunprasanna83
▴ 60
0
votes
1
reply
184
views
doing PBS(population branch statistics) in ANGSD
fst
pbs
ANGSD
1 day ago by
Blessing
• 0
1
vote
1
reply
731
views
How to download BAM file from VM
bam
VM
updated 5 days ago by
Ram
38k • written 2.7 years ago by
nhaus
▴ 280
0
votes
1
reply
1.5k
views
ANNOVAR download and processing frequently Questions
esp6500siv2
annovar
updated 5 days ago by
Ram
38k • written 4.4 years ago by
Shicheng Guo
★ 9.3k
0
votes
1
reply
790
views
Efficient way to download all .bam files in a project from ENA to remote server
ENA
bam
updated 5 days ago by
Ram
38k • written 2.1 years ago by
4galaxy77
2.6k
0
votes
1
reply
618
views
How to download NCBI nulceotide collection database
ncbi
updated 5 days ago by
Ram
38k • written 2.3 years ago by
jomagrax
▴ 40
0
votes
1
reply
153
views
Using multimaping reads or unique reads on featurecounts?
featurecounts
HISAT2
updated 2 days ago by
GenoMax
127k • written 2 days ago by
omargmc.tak
• 0
1
vote
1
reply
1.5k
views
download same sample data sequenced on different platforms.
fastq
platform
updated 5 days ago by
Ram
38k • written 6.8 years ago by
lakhujanivijay
5.7k
1
vote
1
reply
76
views
Integration of RNA seq data aligned to different reference genome versions
scRNA-seq
RNA-seq
updated 11 hours ago by
Ram
38k • written 12 hours ago by
susibing
▴ 20
0
votes
1
reply
125
views
Time change in expression vs time change in phenotype
RNA-Seq
DGE
DESeq2
1 day ago by
Ivan
• 0
0
votes
1
reply
181
views
Gaia CNV error TCGA data
CNV
GAIA
TCGA
updated 6 days ago by
Ram
38k • written 6 days ago by
s.lueong
• 0
1
vote
1
reply
2.9k
views
Igvtools
vcf
igvtools
updated 2 days ago by
Ram
38k • written 9.1 years ago by
jayfreeliu
• 0
0
votes
1
reply
156
views
ImportError: Bio.Alphabet has been removed from Biopython
Biopython
updated 6 days ago by
Wayne
★ 1.7k • written 6 days ago by
Neel
▴ 10
0
votes
1
reply
595
views
Insert size historgram from Picard for Illumina paried end 150 bp: FR, TANDEM, and both
Illumina
bam
insert-size
updated 2 days ago by
Ram
38k • written 16 months ago by
robertwhbaldwin
• 0
0
votes
1
reply
1.3k
views
Viral integration studies using RNA-seq data
virus
RNA-seq
updated 6 days ago by
Ram
38k • written 5.4 years ago by
KVC_bioinfo
▴ 570
1
vote
1
reply
1.8k
views
gdc-client download: ERROR: Max retries exceeded
gdc-client
gdc
updated 5 days ago by
Ram
38k • written 3.7 years ago by
Shicheng Guo
★ 9.3k
0
votes
1
reply
934
views
GOterms Cellular component Homo Sapiens
GO-terms
gene-ontology
GO
updated 5 days ago by
Ram
38k • written 4.7 years ago by
cristygonzalezlopez
• 0
0
votes
0
replies
1.6k
views
constructing smoothed species area curves with different sample sizes?
area-curve
species
sample-size
updated 2 days ago by
Ram
38k • written 7.0 years ago by
horchler
• 0
0
votes
0
replies
217
views
a question about genomescope2
genome
updated 2 days ago by
Ram
38k • written 14 months ago by
542042930
• 0
2
votes
0
replies
490
views
3D distance between two chromosomal coordinates in 3D human genome?
3d
hi-C
genome
chia-pet
updated 6 days ago by
Ram
38k • written 2.0 years ago by
robert.mclaughlin
▴ 20
0
votes
0
replies
147
views
Best method for downstream GSEA to adjust the gene set size to 500 from a 58,000 mark RNA-seq dataset
gene-set
GSEA
updated 2 days ago by
Ram
38k • written 12 months ago by
RZ
• 0
0
votes
0
replies
9
views
topGO error :KS elim test
KS
topGO
enrichment
-elim
analysis
30 minutes ago by
Priya Rao
• 0
0
votes
0
replies
55
views
Problem when downloading dataset from ArrayExpress
Bioconductor
ArrayExpress
8 hours ago by
cogen859
• 0
0
votes
0
replies
119
views
Trajectory analysis using Monocle3 with Seurat sub-clustering
scRNA-seq
Trajectory
Seurat
analysis
Monocle3
2 days ago by
joonhong kwon
▴ 40
0
votes
0
replies
373
views
Tissue specificity for genes, metabolites and bacteria
tissue-specificity
bacteria
genes
metabolites
updated 6 days ago by
Ram
38k • written 2.4 years ago by
mrashad
▴ 60
0
votes
0
replies
79
views
How to perform a gsva assessing for the directonality of the genes.
gsva
1 day ago by
roybatty269
• 0
0
votes
0
replies
148
views
Extract/include transcript list from GAGE analysis result
RNAseq
GAGE
2 days ago by
farzaneafzali
▴ 70
0
votes
0
replies
122
views
issue changing k values on SOAPdenovo2
novo
de
assembly
5 days ago by
parrasevilla.bioinfo
• 0
0
votes
0
replies
285
views
How to deal with differences in sample size for metagenomic diversity based on abundance?
metagenomics
sample-size
updated 2 days ago by
Ram
38k • written 19 months ago by
goatsrunfaster
▴ 50
0
votes
0
replies
103
views
File has zero value indivuals
Haploview
updated 2 days ago by
Ram
38k • written 2 days ago by
Nai
▴ 50
0
votes
0
replies
132
views
BULK mRNA-seq with UMIs. Does it make sense to run bedtools genomecov?
RNAseq
gene-length
normalization
6 days ago by
txema.heredia
▴ 70
0
votes
0
replies
2.0k
views
Target Info File And Pooled Info File For Syzygy
syzygy
updated 2 days ago by
Ram
38k • written 9.5 years ago by
sandhya0888
• 0
1
vote
0
replies
136
views
List of Ongoing and Planned Long Read Sequencing studies?
long-read-sequencing
third-generation
updated 2 days ago by
Ram
38k • written 2 days ago by
Vincent Laufer
★ 2.5k
0
votes
0
replies
1.1k
views
Does it make sense to limit insert size when mapping on transcriptome?
RNA-seq
transcriptome
updated 2 days ago by
Ram
38k • written 5.5 years ago by
Matteo Schiavinato
★ 3.6k
1
vote
0
replies
164
views
Minimap2 giving opposite strand orientation than Pychopper
nanopore
Pychopper
Minimap2
4 days ago by
vanda.gaonach-lovejoy
▴ 10
1
vote
0
replies
133
views
How to calculate Exon-Intron junction perbase coverage?
RNA-Seq
bedtools
5 days ago by
barrypraveen
▴ 110
0
votes
0
replies
97
views
MD simulation error
MD
schrodinger
updated 2 days ago by
Ram
38k • written 2 days ago by
mixmatchey
• 0
1
vote
0
replies
378
views
Single Cell Portal: Download troubles using curl
single-cell-portal
updated 6 days ago by
Ram
38k • written 12 months ago by
needHelpWkeggGSEA
▴ 10
0
votes
0
replies
141
views
Using Lastz aligner
aligner
genome
Lastz
updated 5 days ago by
GenoMax
127k • written 5 days ago by
Diego
▴ 90
0
votes
0
replies
192
views
TCGA STAR download
RNA-seq
STAR
TCGA
updated 6 days ago by
Ram
38k • written 4 months ago by
Rob
▴ 160
0
votes
0
replies
369
views
Visualization of common pathways
visualization
updated 6 days ago by
Ram
38k • written 2.1 years ago by
mrashad
▴ 60
0
votes
0
replies
98
views
How to import impute2.dosage files to analyse it in R (GWAS)
regression
GWAS
impute2
dosage
2 days ago by
Sebastian
• 0
0
votes
0
replies
160
views
ERROR using CIBERSORTx Docker version
deconvolution
version
Docker
CIBERSORTx
2 days ago by
Leite
★ 1.2k
0
votes
0
replies
97
views
calc IBS with vcf files with different snfs
IBS
PLINK
6 days ago by
Mali
• 0
0
votes
0
replies
644
views
How to test the effect of covariate (Ex. Age) on a significant PERMANOVA test of beta diversity?
microbiome
PERMANOVA
Adonis
updated 6 days ago by
Ram
38k • written 2.0 years ago by
ST
• 0
0
votes
0
replies
221
views
CNVkit: setting arbitrary bin size for WGS data
CNV
CNVkit
wgs
updated 2 days ago by
Ram
38k • written 4 months ago by
ashenflower
▴ 20
0
votes
0
replies
79
views
Is there a function to get the number of aligned sites between pairs of sequences in a multiple sequence alignment in R?
msa
R
1 day ago by
audrey
• 0
212 results • Page
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Answer: What is the NCBI's definition of an "atypical genome"?
Comment: GO enrichment analysis
Comment: GO enrichment analysis
Answer: What is the NCBI's definition of an "atypical genome"?
A: Why is RNA-Seq or cDNA used to detect gene fusions instead of gDNA?
Answer: Somatic truth set
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Answer: Align miRNA library (small RNA-seq) without trimming
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bowtie 1 is good for short read < 50bp, how long is your read? bowtie2 is better for reads > 50 bp
Comment: Differences in RNAseq Variant Calling and Allele Specific Expression
by
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Indeed, I thought the quality might be a factor. Still, given the information, it seems odd to me that that call was made. Thanks for you…
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I had this issue today and was able to resolve it by changing the random seed Admixture uses by adding `-s time` (which sets the random see…
Answer: Total No of Genes of GENCODE Release 43
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The following is the correct code gtf_43<-rtracklayer::import('gencode.v43.primary_assembly.annotation.gtf') dtgtf_43<-data.frame(gtf_4…
Comment: Total No of Genes of GENCODE Release 43
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• 0
Hello, thanks for replying, by mistake I paste the wrong code. the following is the corrected gtf_43<-rtracklayer::import('gencode.v43…
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I have no idea what that is besides a bunch of jumbled sequences. You'll need look up the structure of the reads / library from wherever yo…
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First thing: kallisto cannot interface with UMI-tools (kallisto doesn't use read headers and therefore you're stuck with "the kallisto way"…
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Just in case things are hard to find, for the WGS/WES, these are the data (what the file names mean: https://sites.google.com/view/seqc2/ho…
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g:Profiler has an Arabidopsis option: [g:Profiler][1] [1]: https://biit.cs.ut.ee/gprofiler/gost
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The first job is a nightmare and you will need some luck. I understand you're looking for an industry offering. Unfortunately I've worked o…
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