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60 results • Page
1 of 2
Sort: Votes
Rank
Views
Votes
Replies
7
votes
7
replies
4.3k
views
RNA-Seq time series analysis using a DESeq2 spline approach yields far too many significant genes
splines
DESeq2
time-series
RNA-Seq
updated 18 hours ago by
Ram
39k • written 4.4 years ago by
stu111538
▴ 80
5
votes
4
replies
1.5k
views
Detection of DE genes among different tissues of an organism during time - RNA seq
detection
DE-genes
multi-treatments
time-series
updated 18 hours ago by
Ram
39k • written 6.8 years ago by
statfa
▴ 720
4
votes
4
replies
333
views
Segmentation fault Biopython pairwise alignment
biopython
alignment
updated 20 hours ago by
Joe
21k • written 4 days ago by
antoine.fauchois92
▴ 20
3
votes
16
replies
9.9k
views
combining z-scores into a single z-score value
excel
R
statistics
updated 18 hours ago by
Ram
39k • written 4.2 years ago by
Star
▴ 60
2
votes
0
replies
722
views
Why are there multiple bax/fastq files associated with my PacBio run?
genome
PacBio
WGS
sequencing
updated 13 hours ago by
Ram
39k • written 4.0 years ago by
nickvpinkham
▴ 20
2
votes
6
replies
1000
views
Time series RNA seq design query
RNA-seq
time-series
deseq2
updated 19 hours ago by
Ram
39k • written 18 months ago by
kra277
• 0
2
votes
3
replies
688
views
Including bioinformatics into an agriculture/horticulture dissertation project
agrobioinformatics
plant-gene-analysis
updated 13 hours ago by
Ram
39k • written 4.1 years ago by
cipri91rusu
• 0
2
votes
5
replies
386
views
Cutadapt error: too many parameters.
cutadapt
parallel
bash
23 hours ago by
DanielEB_fisk
• 0
1
vote
4
replies
1.5k
views
Time series event recurrence comparison
recurrence
time-series
updated 18 hours ago by
Ram
39k • written 6.7 years ago by
Nicolas Rosewick
10k
1
vote
2
replies
170
views
Converting RefSeq protein accession IDs into entreZ IDs
RNA-SEQ
4 hours ago by
Pegasus
▴ 90
1
vote
5
replies
3.6k
views
Time-series or pairwise comparison EdgeR - what's more suited?
DGE-analysis
Time-series
pairwise
updated 18 hours ago by
Ram
39k • written 6.7 years ago by
Biogeek
▴ 470
1
vote
0
replies
444
views
Using STAR SJ.out.tab file to identify novel ncRNAs
time-course
RNA-seq
ncRNA
STAR
updated 19 hours ago by
Ram
39k • written 17 months ago by
jennifer.conrad84
▴ 10
1
vote
0
replies
153
views
miRDeep2 installation showing "ln: failed to create symbolic link './randfold': File exists" error.
miRDeep2
updated 12 hours ago by
Ram
39k • written 23 hours ago by
Supernova
• 0
1
vote
1
reply
2.6k
views
Comparing time series expression data
time-series
gene-expression
updated 18 hours ago by
Ram
39k • written 5.8 years ago by
The
▴ 180
1
vote
5
replies
2.3k
views
Calculating distance matrix of RNA-seq data
Dynamic-Time-Warping
R
time-series
updated 18 hours ago by
Ram
39k • written 5.2 years ago by
fi1d18
★ 4.2k
1
vote
0
replies
75
views
Resequencing data of pangenome
NGS
PanGenome
Resequence
updated 14 hours ago by
Ram
39k • written 22 hours ago by
bioinfo223
▴ 10
1
vote
3
replies
688
views
Regular Expression for conversion
Linux
grep
updated 18 hours ago by
Joe
21k • written 19 months ago by
shabbas12
▴ 10
0
votes
0
replies
1.7k
views
Artificial Neural Networks applied to environmental data
artificial-neural-networks
time-series
ANN
updated 18 hours ago by
Ram
39k • written 8.6 years ago by
felipehcoutinho
▴ 10
0
votes
0
replies
836
views
Time series analysis for RNA-seq paired samples
TimeSeriesExperiment
RNA-Seq
time-series
updated 18 hours ago by
Ram
39k • written 3.3 years ago by
essief
• 0
0
votes
1
reply
88
views
sorting BAM file
BAM
updated 18 hours ago by
Ram
39k • written 19 hours ago by
Mohammad Amin
• 0
0
votes
1
reply
847
views
Get publication counts per gene per year
eutilities
updated 17 hours ago by
Ram
39k • written 4.2 years ago by
abhijit.synl
▴ 60
0
votes
2
replies
97
views
gatk Hardfilter Error
hardfilter
updated 16 hours ago by
Pierre Lindenbaum
154k • written 16 hours ago by
bestone
▴ 10
0
votes
2
replies
577
views
ERROR running Cuffmerge in reference based RNA-SEQ analysis?
cuffmerge
RNA-Seq
Cufflinks
updated 15 hours ago by
Ram
39k • written 12 months ago by
Meeran
• 0
0
votes
3
replies
206
views
Query qbout single cell sequencing
fastq
ScRNA
updated 14 hours ago by
Ram
39k • written 2 days ago by
abbas.waseem.gcu
• 0
0
votes
0
replies
159
views
Chipseq data peak calling issue
ChIP-seq
RNA
sequencing
updated 14 hours ago by
Ram
39k • written 5 days ago by
Adyasha
• 0
0
votes
0
replies
98
views
pseudo-bulk
scRNAseq
DE
updated 14 hours ago by
Ram
39k • written 21 days ago by
safeassli
• 0
0
votes
0
replies
129
views
Per base sequence content warning in ChIPseq data FastQC analysis
ChIP-seq
FastQC
updated 14 hours ago by
Ram
39k • written 5 weeks ago by
shashianand15
• 0
0
votes
0
replies
185
views
Bed files of narrowPeak in ENCODE
ENCODE
updated 14 hours ago by
Ram
39k • written 26 days ago by
younglin113
▴ 50
0
votes
1
reply
118
views
NCBI Common Taxonomy Tree
phylogenetic-tree
comparative-taxonomy
ncbi
updated 14 hours ago by
GenoMax
129k • written 17 hours ago by
fafad046
• 0
0
votes
1
reply
802
views
Segmentation method in CNV
CNV
sequencing
updated 14 hours ago by
Ram
39k • written 4.1 years ago by
nesma.abdelaziz
• 0
0
votes
1
reply
149
views
weird behaviour on bedtools
bedtools
RNA-Seq
updated 12 hours ago by
Ram
39k • written 1 day ago by
barrypraveen
▴ 110
0
votes
1
reply
119
views
Seurat: How to get all genes name of a cell ?
seurat
updated 11 hours ago by
jv
★ 1.2k • written 22 hours ago by
Picasa
▴ 640
0
votes
0
replies
161
views
Different alternatives for downloading GWAS summary statistics en masse
GWAS
9 hours ago by
Vincent Laufer
★ 2.8k
0
votes
0
replies
47
views
Nucleotide alignments from mmseqs "tblastn"
mmseqs2
tblastn
mmseqs
9 hours ago by
saladi1
▴ 30
0
votes
2
replies
193
views
BCR/TCR analysis using target capture sequencing data
capture
ngs
TCR
BCR
7 hours ago by
J.F.Jiang
▴ 900
0
votes
0
replies
48
views
Which type of variant caller should I use in a WES normal cell line sample?
variant-caller
WES
6 hours ago by
bompipi95
▴ 120
0
votes
7
replies
478
views
How to deal with duplicated gene IDs in TCGA RNA expression data?
TCGA
Expression
mRNA
updated 6 hours ago by
Vincent Laufer
★ 2.8k • written 4 days ago by
Camilo Andres
▴ 30
0
votes
2
replies
102
views
minimap's SAM file MAPQ value for the unique alignments
minimap
MAPQ
RNAseq
updated 2 hours ago by
WouterDeCoster
47k • written 19 hours ago by
Mohd
• 0
0
votes
2
replies
95
views
Dada2 in Qiime2: losing reads during merging
Qiime2
Chimer
Dada2
2 hours ago by
kamanovae
▴ 80
0
votes
0
replies
12
views
1000G reference panel for LD clumping
LD
1 hour ago by
en_keser
• 0
0
votes
0
replies
11
views
How to get a comperative result of 2 bed files?
bam
cnv
bed
49 minutes ago by
herh
• 0
0
votes
0
replies
7
views
metagenomics data - AMR genes
amr
resistome
resistance
ARG
metagenomics
33 minutes ago by
aziznasr1920
• 0
0
votes
0
replies
9
views
Create customized gene annotation file
reference
mkref
genome
cellranger
33 minutes ago by
rhonddaskl
• 0
0
votes
0
replies
1
view
MACS2 peak calling
MACS2
peak
calling
just now by
Maurice
• 0
0
votes
0
replies
65
views
Converting rds file to h5ad and saving raw counts as X
R
seurat
updated 22 hours ago by
zx8754
11k • written 22 hours ago by
sidrah.maryam
▴ 50
0
votes
0
replies
87
views
Bulk RNA sequencing time course pathway analysis progression visualization
time-course
RNA-seq
pathway
updated 19 hours ago by
Ram
39k • written 1 day ago by
Fred
• 0
0
votes
0
replies
457
views
Error running gene expression based ProTINA
ProTINA
Time-Series
gene-expression
updated 19 hours ago by
Ram
39k • written 2.5 years ago by
Omics data mining
▴ 220
0
votes
0
replies
453
views
Normalizing multiple conditons all together
RMA
microarray
time-series
updated 19 hours ago by
Ram
39k • written 2.6 years ago by
Raheleh
▴ 250
0
votes
0
replies
611
views
Tools for mRNA-Seq time series DGE GCN and other analyses
time-course
RNA-Seq
time-series
updated 19 hours ago by
Ram
39k • written 3.1 years ago by
Anand Rao
▴ 560
0
votes
4
replies
785
views
Detecting Biomarkers from Time Series Gene Epression data
Time-Series
Gene-Expression
Biomarkers
updated 19 hours ago by
Ram
39k • written 3.1 years ago by
donnieDarko
• 0
60 results • Page
1 of 2
Recent Votes
C: removing overrepresented sequences from rna-seq
C: removing overrepresented sequences from rna-seq
C: Filtering rRNA contamination (indicated by GC content plots) from RNA-seq data
Answer: Any methods available to do QC analysis of Pacbio raw data??
A: Run R in multi threaded
Comment: Segmentation fault Biopython pairwise alignment
Basic normalization, batch correction and visualization of RNA-seq data
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Answer: Peaks annotation on bacterial genome
by
Maurice
• 0
Thank you for your kind reply! I have just a further question. Which is the difference between using annoPeaks and annotatePeaksinbatch wi…
Comment: Dada2 in Qiime2: losing reads during merging
by
kamanovae
▴ 80
Thanks for the answer! I requested information from the lab. Indeed, a region was sequenced that does not overlap with such short reads o…
Answer: CluserProfiler message "No gene can be mapped"
by
13554221497
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use_internal_data=TRUE the kegg analysis need read KEGG annotation online, so if your network is bad, the analysis maybe failed; …
Comment: CluserProfiler message "No gene can be mapped"
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13554221497
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use_internal_data=TRUE, add the params maybe can solve the problem. KEGG analysis need reading KEGG annotation online, so if your netw…
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> 'str' object has no attribute 'merge' It appears you are trying to merge file names rather than dataframes. You have to read in those f…
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I believe that the easiest option for paired-end data is to use `fastq-sample` from fastq-tools: ``` fastq-sample -n 5000000 pair_R1.fa…
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It always depends on what you want to do with the data. > to the reference database That is not too specific, do you mean genome, transcr…
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What makes you think everyone here is a "sir"?
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Thanks for your response! However, when I tried it with my text files, I get an error stating: AttributeError: 'str' object has no attribut…
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In general this is called an inner join, which is easy using the `pandas` library in Python. ``` import pandas as pd df1and2 = df1.merge(…
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I also said that on this forum xD. But anyway, actually its probably not impossible. What I would do is first read through [the FAQ][1], …
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few of them, like 25, according to Gene_Entrez_IDs. They are the data from the pancancer project corresponding to breast invasive carcinoma…
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Thanks, Jesse We designed the probes based on the genomic sequences of V/D/J genes within the TCR/BCR loci. I've tried both IgBlast and M…
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