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1,000 results • Page
2 of 20
Sort: Views
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Views
Votes
Replies
8
votes
5
replies
11k
views
samtools tview symbols
samtools
updated 4 months ago by
Ram
38k • written 7.7 years ago by
biolab
★ 1.4k
0
votes
3
replies
11k
views
How to change/remove name of annotation ComplexHeatmap package?
ComplexHeatmap
R
RNA-Seq
annotations
updated 2.8 years ago by
Ram
38k • written 2.8 years ago by
camillab.
▴ 130
7
votes
9
replies
11k
views
Different alignment rates for Hisat2 and STAR, Hisat2 has lower alignment rate and STAR have many multi aligned reads
RNA-Seq
updated 5.5 years ago by
Satyajeet Khare
★ 1.6k • written 5.5 years ago by
SMILE
▴ 170
0
votes
3
replies
11k
views
edgeR: likelihood ratio test or quasi-likelihood F-test?
R
rna-seq
next-gen
5.9 years ago by
moxu
▴ 500
3
votes
4
replies
11k
views
Zlib.Error: -3 While Decompressing: Invalid Distance To Far Back (By Using Macs For Chip-Seq Data)
error
11.5 years ago by
Lisanne
• 0
4
votes
7
replies
11k
views
Grab Coordinate Of Centromeres From Ucsc
ucsc
9.9 years ago by
jeansimon32
▴ 160
2
votes
13
replies
11k
views
8 follow
(ERR): bowtie2-align exited with value 1
software error
RNA-Seq
updated 5.2 years ago by
basucsmcri
• 0 • written 6.1 years ago by
biostarsb
▴ 30
2
votes
1
reply
11k
views
Rename Idents in Seurat Object
RNA-Seq
2.8 years ago by
Thorerges
▴ 10
0
votes
4
replies
10k
views
Convert .gbf file to .gbk or .gff
gbk
gff
gbf
updated 9 weeks ago by
Ram
38k • written 7.8 years ago by
che.bellaj
• 0
2
votes
3
replies
10k
views
converting maf to vcf
Exome
maf2vcf
updated 8 weeks ago by
Ram
38k • written 7.8 years ago by
ashishchahl
• 0
4
votes
9
replies
10k
views
Seqtk subseq: structure of file name.lst
sequence
next-gen
updated 4.9 years ago by
Ram
38k • written 4.9 years ago by
ste.lu
▴ 80
3
votes
1
reply
10k
views
Negative P-Values
gene
genome
next-gen-sequencing
updated 7 months ago by
Ram
38k • written 7.5 years ago by
stevenlang123
▴ 200
3
votes
8
replies
10k
views
6 follow
How do I go from UniProt ID to retrieving the gene name?
sequence
5.4 years ago by
a.rex
▴ 350
1
vote
13
replies
10k
views
MarkDuplicates memory issue
alignment
Picard
MarkDuplicates
7.2 years ago by
cacampbell
▴ 50
2
votes
4
replies
10k
views
Pymol-Generate Pymol Movie To Mpeg
pymol
updated 14 months ago by
Ram
38k • written 11.2 years ago by
Reyhaneh
▴ 530
1
vote
2
replies
10k
views
Downloading BAM files GEO/SRA
bam
sra
geo
samtools
sratoolkit
6.7 years ago by
ilobelo
▴ 10
2
votes
0
replies
10k
views
How to plot UniFrac PCoA with 95% confidence Elipses in R
metagenomics
ordiellipse
vegan
R
phyloseq
updated 12 months ago by
Ram
38k • written 8.2 years ago by
c.v.oflynn
▴ 100
0
votes
13
replies
10.0k
views
"[E::bgzf_read] Read block operation failed" error - possible truncation/corruption of BAM file
samtools
updated 22 months ago by
darklings
▴ 480 • written 3.5 years ago by
gordo2b
• 0
2
votes
1
reply
10.0k
views
Calculate Linkage Disequilibrium For Snps (Using R^2)
snp
linkage
9.7 years ago by
TitoPullo
▴ 180
13
votes
6
replies
9.9k
views
6 follow
MAF vs VAF
sequencing
5.0 years ago by
lauren.wahyudi
▴ 40
2
votes
8
replies
9.9k
views
Loading Custom Genome In Igv Is Not Displaying Genes, Names Match.
igv
gff
reference
contigs
11.1 years ago by
Nickengland
▴ 130
7
votes
8
replies
9.9k
views
Picard tools duplicate removal
RNA-Seq
picard-tools
5.4 years ago by
blur
▴ 270
11
votes
10
replies
9.8k
views
Extracting from tophat outputs reads pairs and splice-junctions with a single best match
TOPHAT
RNA-Seq
updated 15 months ago by
Ram
38k • written 8.6 years ago by
trakhtenberg
▴ 160
41
votes
55
replies
9.8k
views
6 follow
hash function for DNA sequences
hash
hashing
DNA
7.0 years ago by
midox
▴ 290
1
vote
1
reply
9.7k
views
Raxml bootstrap support values
figtree
raxml
bootstrap
updated 18 months ago by
Ram
38k • written 8.8 years ago by
JackBel
• 0
0
votes
0
replies
9.7k
views
Map Between Uniprot Accesion And Gene.Symbol Using R Or/And Mysql
r
bioconductor
mysql
9.2 years ago by
jfertaj
▴ 110
1
vote
2
replies
9.7k
views
Converting MSTRG from stringtie with gene name
RNA-Seq
Stringtie
updated 5.2 years ago by
Biostar
20 • written 5.2 years ago by
fhassanz
▴ 20
3
votes
2
replies
9.6k
views
BWA-MEM Vs BWA-ALN
next-gen
genome
alignment
6.9 years ago by
SOHAIL
▴ 400
4
votes
14
replies
9.6k
views
All the reads aligned using STAR have low mapping quality (0-3). What is happening?
mapping quality
STAR
BWA
alignment
6.7 years ago by
kirannbishwa01
★ 1.5k
6
votes
7
replies
9.5k
views
bedtools intersect bed and vcf, coordinates problem
bedtools
bed
vcf
6.0 years ago by
abascalfederico
★ 1.2k
3
votes
16
replies
9.5k
views
combining z-scores into a single z-score value
R
excel
bioinformatics
statistics
stats
4.0 years ago by
Star
▴ 50
1
vote
5
replies
9.4k
views
What Agilent Interval Files (.Bed) Should I Use For Exome Variant Calling With Gatk?
bed
agilent
gatk
updated 3.1 years ago by
Karma
▴ 310 • written 9.3 years ago by
newDNASeqer
▴ 750
2
votes
16
replies
9.4k
views
Tophat with Bowtie2 long index
tophat
bowtie
updated 14 months ago by
Ram
38k • written 8.7 years ago by
BDK_compbio
▴ 130
7
votes
9
replies
9.3k
views
Samtools Index Segmentation Fault
samtools
index
9.0 years ago by
Noushin N
▴ 600
0
votes
0
replies
9.2k
views
pheatmap row annotation and title font size questions
heatmap
pheatmap
updated 10 weeks ago by
Ram
38k • written 7.8 years ago by
neokao
• 0
3
votes
9
replies
9.2k
views
Error with samtools faidx...Different line length in sequence
samtools
faidx
updated 4.8 years ago by
Biostar
20 • written 5.0 years ago by
oars
▴ 190
3
votes
6
replies
9.2k
views
6 follow
How to calculate genetic correlation with R
R
updated 10 months ago by
ibomsolomon
• 0 • written 8.9 years ago by
Tohamy
▴ 80
2
votes
2
replies
9.1k
views
How to make clusters in heat map using ggplot2?
RNA-Seq
rna-seq
R
3.9 years ago by
John
▴ 270
2
votes
8
replies
9.1k
views
Size of typical genomic data
size
genomic
updated 4.9 years ago by
Tm
★ 1.1k • written 4.9 years ago by
Nicolas Rosewick
10k
3
votes
10
replies
9.0k
views
How can I obtain SNP from TCGA?
Risky-allele
BRCA
SNP
updated 14 months ago by
Ram
38k • written 8.5 years ago by
purmod
▴ 10
0
votes
1
reply
9.0k
views
Is it normal that nearly all of p-value is equal to 0.1 in PERMANOVA analysis
PERMANOVA
statistics
metagenomics
updated 2.2 years ago by
dqq102829
• 0 • written 3.2 years ago by
zhangdengwei
▴ 180
3
votes
4
replies
9.0k
views
basename: missing operand
snp
3.7 years ago by
evelyn
▴ 220
2
votes
2
replies
9.0k
views
Imputation Analysis In Plink?
plink
gwas
imputation
11.1 years ago by
Davy
▴ 210
4
votes
2
replies
8.9k
views
Hisat2 versus Bowtie2
Exome-sequencing
hisat2
bowtie2
updated 5.7 years ago by
Biostar
20 • written 6.9 years ago by
nalpas.nicolas
▴ 20
0
votes
2
replies
8.9k
views
DESeq2 pheatmap returns Error in check.length("fill") : 'gpar' element 'fill' must not be length 0
RNA-Seq
DESeq2
gpar
pheatmap
5.4 years ago by
Anthony.Knox
▴ 60
13
votes
22
replies
8.8k
views
SVA : Setting up the data from an ExpressionSet and applying sva function to extimate batches
sva
combat
batch effects
updated 5.5 years ago by
Biostar
20 • written 5.7 years ago by
lessismore
★ 1.3k
1
vote
4
replies
8.8k
views
R ggplot Align Y-Axis on multiple graphs
ggarrange
ggplot2
r
updated 3.6 years ago by
Biostar
20 • written 5.1 years ago by
jjrin
▴ 40
0
votes
8
replies
8.7k
views
how to find a read by name in a bam file
next-gen
sequencing
Tool
updated 5.7 years ago by
Samuel Brady
▴ 320 • written 5.7 years ago by
himanimalhotra89
• 0
3
votes
4
replies
8.7k
views
Aligning RNA seq data to genome or transcriptome
RNA-Seq
ngs
transcriptome
genome
updated 5.5 years ago by
Ram
38k • written 5.5 years ago by
KVC_bioinfo
▴ 570
5
votes
8
replies
8.7k
views
7 follow
Converting SNP names from Illumina GSA array to rsID using PLINK
SNP
plink
5.4 years ago by
dam4l
▴ 180
1,000 results • Page
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Comment: bioinformatics problems solved by graphs data structure
Comment: bioinformatics problems solved by graphs data structure
Answer: How to analize multiple letters codes in COG IDs?
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Question on number of possible alignments
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Comment: bioinformatics problems solved by graphs data structure
by
lieven.sterck
14k
et mon français est assez bien pour comprendre ce que tu as écrit la ;-)
Comment: How to analize multiple letters codes in COG IDs?
by
Constanza
• 0
Thanks for answering so fast, it was very helpful. I shouldn't pay much attention to if COGs are separated by a comma or not then. As long…
Comment: bioinformatics problems solved by graphs data structure
by
lieven.sterck
14k
well, because this is not you guys' private forum, there are other people participating (not native french speaking) , just to give a reaso…
Answer: How to get gene from PSIBLAST resuts
by
lieven.sterck
14k
what you likely will need to do: 1. get the ID of the protein that you are interested in (out of result from PSIBLAST) 2. lookup that ID…
Answer: How to analize multiple letters codes in COG IDs?
by
Mensur Dlakic
★ 23k
The meaning of individual letters is described in a well-known COG functional code: https://ecoliwiki.org/colipedia/index.php/Clusters_o…
Comment: How to find promoter sequence of a gene?
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sunyeping
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The organism is mice.
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by
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153k
BLAT your cDNAs to the reference. This should be a PSL file that can be converted to a psl->gff3 converter (e.g: https://github.com/gperte…
Comment: RNAseq: same reads + more complete scaffold = fewer DEGs?
by
Darked89
4.2k
You may try to check what happened with DEGs obtained using the 300 fragments assembly by getting the sequences of these genes and comparin…
Comment: ExomeDepth installation error
by
Medha
• 0
Thanks, that did work. Also in next steps, there are some arguments like bam.files, I was wondering do we require to have multiple bam fil…
Comment: ExomeDepth installation error
by
jared.andrews07
★ 14k
No idea, I don't use databricks. I'd read the docs, find a local expert to help you out, or contact their support, likely in that order.
Comment: ExomeDepth installation error
by
Medha
• 0
Hi @jaredandrews07 thanks for reverting back. I am new to R and just want to make sure ExomeDepth is working for the first time. For the Rs…
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by
Mensur Dlakic
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It is not obvious to me what exact steps you did here, but here is what I do know: there will always be stop codons even in open reading fr…
Comment: Error with a function in ATAC-seq analysis
by
Chris
▴ 70
So you skip the GRanges()? Yes, no error anymore but I am not sure if that causes changing in downstream analysis.
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`stringr::str_remove` can remove " - Mus musculus (house mouse)" from the pathway names which are stored under `KEGGPATHID2NAME$to` in your…
Comment: Error with a function in ATAC-seq analysis
by
jv
★ 1.0k
run `union` on the data frames
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