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Limit : this month
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688 results • Page
2 of 14
Sort: Votes
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Votes
Replies
4
votes
7
replies
621
views
To get p-values for the TPM
P-value
TPM
RSEM
updated 25 days ago by
dsull
★ 6.0k • written 26 days ago by
VITALA
• 0
4
votes
5
replies
3.4k
views
How to compare compare two Sam files to check mapping
alignment
updated 12 days ago by
DavidStreid
▴ 90 • written 6.4 years ago by
madhu.9124
▴ 60
4
votes
3
replies
3.0k
views
How to solve the error 'ERROR::MATE_NOT_FOUND:Found xxx unpaired mates' when run SamToFastq
samtofasq
picard
validatesamfile
updated 11 days ago by
Pierre Lindenbaum
161k • written 11 days ago by
Lila M
★ 1.2k
4
votes
4
replies
3.0k
views
CNVkit for somatic copy number detection
cnv
cnvkit
exome
WES
updated 6 days ago by
Anitha
• 0 • written 5.1 years ago by
stephaniem
• 0
4
votes
5
replies
467
views
Figures are disappeared from html report of SnpEff
HTML
SnpEff
21 days ago by
analyst
▴ 50
4
votes
11
replies
905
views
Redirection of Duplicate PMIDs
pubmed
pmid
updated 26 days ago by
LauferVA
4.2k • written 27 days ago by
dominickd
• 0
4
votes
7
replies
537
views
In one PCA plot, can I calculate the percentage of different factors that contribute to the PCA?
PCA
R
VARIANCE
updated 3 days ago by
marco.barr
▴ 130 • written 5 days ago by
diqixiaoyaoer
▴ 20
4
votes
9
replies
2.2k
views
6 follow
Same sequencing sample in multiple lanes. How to analyse it?
sequencing
bowtie2
alignment
samtools
ngs
updated 17 days ago by
ST
• 0 • written 2.2 years ago by
Federico
• 0
4
votes
2
replies
290
views
How can I analyze normalized expression data?
DEseq2
RNA-seq
11 days ago by
mnx0723
• 0
4
votes
6
replies
3.9k
views
Taking the difference of two VCFs (or removing singletons)
genome
sequencing
singleton
SNP
filter
updated 20 days ago by
Andres
▴ 20 • written 9.7 years ago by
hermathena
▴ 40
4
votes
2
replies
275
views
Analysis of intronic reads included scRNA-seq data
single-cell
updated 16 days ago by
Ram
43k • written 17 days ago by
carolofharvest
▴ 40
4
votes
12
replies
4.9k
views
10 follow
How to analyze Infinium Mouse Methylation BeadChip array data?
Methylation
Experience
Illumina
Mouse
updated 11 days ago by
Tawny
▴ 180 • written 3.0 years ago by
julia_geh
▴ 20
4
votes
9
replies
2.1k
views
Legend and hap files for imputation with 38 build
reference
38build
impute
imputation
21 days ago by
anna
▴ 20
4
votes
2
replies
289
views
GRCh38.gmap file
gnomix
gmap
15 days ago by
lorena9132
▴ 10
4
votes
0
replies
166
views
Herald:
The Biostar Herald for Monday, April 29, 2024
herald
21 days ago by
Biostar
2.8k
4
votes
8
replies
775
views
Create a new bed file with all pairwise combinations between two other bed files, based on bp distance
SNPs
BED
eqtl
bedtools
updated 23 days ago by
Alex Reynolds
35k • written 24 days ago by
J
▴ 10
4
votes
2
replies
197
views
Duplicated sequence samtools
bowtie2
samtools
updated 7 days ago by
GenoMax
142k • written 7 days ago by
Moinuddin
• 0
4
votes
15
replies
1.7k
views
how to test for differential expression in samples where a global increase in gene expression is expected
edgeR
DESeq
Differential-Expression
RNA-Seq
updated 16 days ago by
Gordon Smyth
★ 7.2k • written 5 months ago by
raplayer
▴ 10
4
votes
1
reply
214
views
Extracting only 4-fold degenerate sites from gene sequences/alignments?
alignments
6 days ago by
J.
▴ 40
4
votes
1
reply
271
views
LD-prune variants while maintaining a list of SNPs
snp
vcf
plink
filtering
independent
updated 14 days ago by
zx8754
11k • written 16 days ago by
Jautis
▴ 560
4
votes
5
replies
4.4k
views
Tool:
GRIDSS: the Genomic Rearrangement IDentification Software Suite
Assembly
Structural-Variation
Variant-Calling
updated 3 days ago by
dario.garvan
▴ 520 • written 7.2 years ago by
d-cameron
★ 2.9k
4
votes
9
replies
491
views
Faster Needleman-Wunsch rapid global alignment of two sequences?
Needleman-Wunsch
alignment
3 days ago by
Gabriel R.
★ 2.9k
4
votes
6
replies
818
views
7 follow
Heatmap and rna-seq
RNA-Seq
Heatmap
updated 23 days ago by
dsull
★ 6.0k • written 27 days ago by
qudrat.nii
▴ 10
4
votes
3
replies
373
views
Kraken2 database
kraken
microbialdb
database
krakendb
kraken2
updated 6 days ago by
Mathew
▴ 150 • written 9 days ago by
Christopher
• 0
4
votes
7
replies
438
views
How does gene length effect the number of reads mapped
RNA-seq
CPM
sequencing
6 days ago by
Chen
• 0
3
votes
5
replies
356
views
Generating mpileup file using samtools
mpileup
samtools
updated 17 days ago by
Joe
21k • written 17 days ago by
Ruqaiya
• 0
3
votes
2
replies
325
views
p-value and Boneferroni adjusted p-value the same in R
Bonferroni
R
Statistics
p-value
Fisher
28 days ago by
kristiewyleung
• 0
3
votes
2
replies
431
views
Extract protein sequence
fasta
alignment
blast
20 days ago by
anna
▴ 20
3
votes
6
replies
526
views
install package: package ‘gmwm’ is not available for this version of R
r
updated 7 days ago by
Pine
▴ 20 • written 15 days ago by
snajafy
• 0
3
votes
7
replies
425
views
FastQC Quality per tile and per sequence behaving strange after using Cutadapt
fastqc
cutadapt
illumina
tile
paired-end
21 days ago by
salias
• 0
3
votes
3
replies
376
views
Sequence read length shorter than flow cell specification
illumina
NGS
sequencing
updated 24 days ago by
swbarnes2
14k • written 25 days ago by
M
• 0
3
votes
1
reply
290
views
Seurat merge and batch correction
Seurat
updated 27 days ago by
Ram
43k • written 27 days ago by
sooni
▴ 20
3
votes
4
replies
425
views
Why gatk VariantAnnotator required bam and coverage files
gatk
VariantAnnotator
25 days ago by
QX
• 0
3
votes
6
replies
2.0k
views
7 follow
DNA methylation preprocessing
SWAN
DNA
methylation
Funnorm
updated 23 days ago by
Ram
43k • written 2.4 years ago by
SYOSY
▴ 10
3
votes
0
replies
162
views
News:
Interested in Spatial Omics?
Bioconductor
Spatial-Omics
Spatial-Transcriptomics
updated 27 days ago by
Ram
43k • written 27 days ago by
carlopecoraro2
★ 2.5k
3
votes
5
replies
648
views
SLURM submission problem: Indexing the Reference Genome is not done in STAR
align
RNA-Seq
linux
STAR
28 days ago by
n_navy
• 0
3
votes
0
replies
1.1k
views
Tool:
Sars-Cov-2 Genome & ACE 2 Exploration
sequence
alignment
SNP
genome
15 days ago by
Ibrahim Tanyalcin
★ 1.2k
3
votes
4
replies
342
views
Would you bother re-mapping RNA-seq data from an old GRCh38 build to a newer version?
RNA-seq
patch
freeze
genome
updated 3 days ago by
Jeremy Leipzig
22k • written 4 days ago by
Ali
• 0
3
votes
5
replies
362
views
Per base sequence content error in RNAseq analysis
RNA-seq
analysis
updated 28 days ago by
GenoMax
142k • written 28 days ago by
ahmad.sajad4541
• 0
3
votes
1
reply
217
views
Question about methylation location
Methylation
WGBS
bisulfide
updated 10 days ago by
dthorbur
★ 2.0k • written 10 days ago by
Eren
• 0
3
votes
3
replies
457
views
absolute path for symbolic links in Snakefile
Snakemake
updated 10 days ago by
Jesse
▴ 770 • written 4 weeks ago by
yifangt86
▴ 60
3
votes
8
replies
641
views
How to access TCGA samples that were treated with a specific drug?
TCGA
RNA-seq
14 days ago by
Qroid
▴ 40
3
votes
3
replies
375
views
genome assembly records not present in assembly_summary.txt
ncbi
bacteria
assembly
updated 24 days ago by
GenoMax
142k • written 24 days ago by
sapuizait
▴ 10
3
votes
2
replies
204
views
Publish a Letter in higher impact vs Research article in lower impact
Article
Letter
Journal
updated 7 days ago by
ATpoint
82k • written 7 days ago by
jennyp0706
• 0
3
votes
8
replies
734
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 14 days ago by
Chris Dean
▴ 410 • written 18 days ago by
sovrappensiero
▴ 100
3
votes
3
replies
301
views
Getting the nucleotide sequence of proteins, having their UniProt IDs
Nucleotide
Genomic
Sequence
Uniprot
Proteins
updated 28 days ago by
GenoMax
142k • written 28 days ago by
Mariana
▴ 40
3
votes
4
replies
4.0k
views
FarmCPU - how to explain the reported 'effect'?
gwas
updated 12 days ago by
chloek88
• 0 • written 5.6 years ago by
Philipp Bayer
8.5k
3
votes
4
replies
352
views
Truncated metadata file report from ENA Portal API
ena
python
10 days ago by
Giulia
• 0
3
votes
3
replies
298
views
Gene Specific coverage from WGS data
WGS
SARS-CoV2
updated 6 days ago by
Ram
43k • written 20 days ago by
Adyasha
• 0
3
votes
3
replies
280
views
Genbank vs SRA
ncbi
genbank
genomics
sra
updated 28 days ago by
Mensur Dlakic
★ 27k • written 28 days ago by
c_u
▴ 520
688 results • Page
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Hi Mohamed, I also thought the same thing but we run the risk of inserting other errors perhaps by modifying the function. I tried but I ha…
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Please do a few simple Google searches before asking others for help.
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This post does not fit the theme of this forum.
Comment: ICGEB - SLIBTEC NGS Workshop: Won Best Oral Presentation Award
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Hi, Congratulations but this is not LinkedIn, we are not a place to showcase your professional accomplishments. This does not fall under t…
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Many (most?) programs related to NGS data analysis produce non-deterministic output (unless they explicitly offer an option to produce dete…
Comment: How to find SRA sequences of some fungal whole genome sequences if only Biosampl
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142k
For those samples it appears that raw data was not submitted. Just an assembly. $ esearch -db biosample -query SAMN08009548 | elink -…
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Anita
• 0
Great, thank you!
Comment: Filter Genome for Specific Sites
by
Anita
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This is unhelpful and doesn't answer my question.
Comment: How to find SRA sequences of some fungal whole genome sequences if only Biosampl
by
Harshita
• 0
It seems that the authors in this paper have used paired-end sequences only for their analysis, and for that, they would also have used the…
Comment: How to find SRA sequences of some fungal whole genome sequences if only Biosampl
by
Harshita
• 0
Thank you so much for helping me out in this! I have used most of the sequences that are found in this table. But, some samples like the…
Answer: How to find SRA sequences of some fungal whole genome sequences if only Biosampl
by
GenoMax
142k
Looks like the samples are from this project: https://www.ncbi.nlm.nih.gov/Traces/study/?acc=PRJNA320483&o=acc_s%3Aa This table has the SR…
Comment: Filter Genome for Specific Sites
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Pierre Lindenbaum
161k
> My sites are in an Excel file right now ![enter image description here][1] <!-- was an American educator and academic administrator…
Answer: Filter Genome for Specific Sites
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142k
> I have a list of ~1,300 single bp sites Convert your file to plain text [**BED format**][1] (three fields required). Use `bedtools slo…
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by
sainavyav22
• 0
It worked, Thank you very much!
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