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1,000 results • Page
2 of 20
Sort: Views
Rank
Views
Votes
Replies
9
votes
11
replies
12k
views
6 follow
Extracting Reads Containing A Specific Variant From A Bam File
bam
sam
format
cigar
updated 7 days ago by
craigdj91
• 0 • written 9.2 years ago by
Nick Stoler
▴ 70
8
votes
7
replies
11k
views
8 follow
Ribosomal Intervals For Collectrnaseqmetrics
rna-seq
qc
picard
updated 11 days ago by
gimenagomez
• 0 • written 9.9 years ago by
Johan
▴ 880
11
votes
4
replies
11k
views
Issue with naming convention in bedtools
SAM
bedtools
updated 17 days ago by
Ram
37k • written 7.8 years ago by
A. Domingues
★ 2.6k
11
votes
10
replies
11k
views
Can Limma package be used for RNA-Seq Differential gene expression analysis for Quantile normalized log transformed RPKM data
RNA-Seq
limma
TCGA
updated 2 days ago by
Ram
37k • written 7.7 years ago by
David_emir
▴ 460
0
votes
4
replies
10k
views
Convert .gbf file to .gbk or .gff
gbk
gff
gbf
updated 17 days ago by
Ram
37k • written 7.7 years ago by
che.bellaj
• 0
2
votes
3
replies
10k
views
converting maf to vcf
Exome
maf2vcf
updated 13 days ago by
Ram
37k • written 7.7 years ago by
ashishchahl
• 0
28
votes
8
replies
10k
views
10 follow
How to remove reads associated with a specific region from bam file?
alignment
RNA-Seq
samtools
updated 17 days ago by
Ram
37k • written 7.7 years ago by
noushin.farnoud
▴ 120
20
votes
45
replies
10k
views
9 follow
Tool to separate human and mouse rna seq reads
RNA-Seq
next-gen-sequencing
updated 13 days ago by
Ram
37k • written 7.7 years ago by
Ron
★ 1.1k
25
votes
11
replies
10.0k
views
10 follow
Bacterial Annotation Pipeline
bacteria
next-gen-sequencing
updated 27 days ago by
Ram
37k • written 11.3 years ago by
scapella
▴ 390
11
votes
7
replies
9.9k
views
7 follow
How to filter/view reads mapped to multiple locations using samtools or pysam
python
samtools
pysam
updated 26 days ago by
rohitsatyam102
▴ 690 • written 5.9 years ago by
AlchemistMoz
▴ 40
21
votes
14
replies
9.7k
views
8 follow
How to randamly extract reads from a FASTQ file?
fastq
updated 12 days ago by
Ram
37k • written 7.7 years ago by
biolab
★ 1.4k
9
votes
3
replies
9.3k
views
How to correctly use the color option in R image() function?
R
image
updated 3 days ago by
Ram
37k • written 7.7 years ago by
Xianjun
▴ 300
23
votes
17
replies
9.2k
views
7 follow
deinterleave fastq file
fastq
bamtofastq
updated 2 days ago by
Ram
37k • written 7.8 years ago by
anon
▴ 50
0
votes
0
replies
9.1k
views
pheatmap row annotation and title font size questions
heatmap
pheatmap
updated 26 days ago by
Ram
37k • written 7.7 years ago by
neokao
• 0
5
votes
3
replies
9.0k
views
STRUCTURE software for GBS SNP data
software-error
SNP
updated 2 days ago by
Ram
37k • written 7.9 years ago by
dinesh
▴ 50
8
votes
4
replies
8.6k
views
How to convert BAM to FASTQ using Picard Tools ?
Picard
BAM
FASTQ
updated 17 days ago by
Ram
37k • written 7.7 years ago by
Deepak Tanwar
★ 4.2k
16
votes
11
replies
8.5k
views
7 follow
get build 37 positions from dbSNP rsIDs
rsID
dbSNP
updated 12 days ago by
Ram
37k • written 5.7 years ago by
Tommy Carstensen
▴ 210
6
votes
4
replies
8.5k
views
DESeq2: Error: $ operator is invalid for atomic vectors using DESeqDataSetFromMatrix
deseq2
DESeqDataSetFromMatrix
updated 11 days ago by
Ram
37k • written 7.7 years ago by
Nicolas Rosewick
10k
7
votes
11
replies
8.3k
views
Tips to speed up read.fasta() in R for large files?
fasta
sequence
R
updated 26 days ago by
Ram
37k • written 7.7 years ago by
oliver.bayfield
▴ 210
0
votes
5
replies
8.2k
views
What about RMSD ?
rmsd
updated 27 days ago by
Ram
37k • written 7.7 years ago by
chemistry1233
▴ 50
27
votes
22
replies
8.1k
views
miRNA mapping rate is very low.. (less than 0.03%)
NGS
miRNA
updated 27 days ago by
Ram
37k • written 7.7 years ago by
illinois.ks
▴ 200
14
votes
9
replies
8.1k
views
7 follow
Hg19 Coordinate To Cds Position
mapping
genomics
coordinates
cds
position
updated 5 days ago by
Ram
37k • written 10.8 years ago by
Halit
▴ 90
1
vote
2
replies
8.1k
views
COSMIC Mutation ID
COSMIC
updated 16 days ago by
Ram
37k • written 7.7 years ago by
byoo
• 0
9
votes
21
replies
8.1k
views
Tool:
BioLabDonkey - new Mac program for molecular biologists
software
biolabdonkey
updated 12 days ago by
Ram
37k • written 3.6 years ago by
vytarasov
▴ 170
8
votes
6
replies
8.1k
views
6 follow
Quadruplex sequence batch prediction
Quadruplex
updated 2 days ago by
Ram
37k • written 7.7 years ago by
Qi Zhao
▴ 50
9
votes
10
replies
8.1k
views
6 follow
how to remove adapter sequence in RNAseq fastq file from a paper.
RNA-Seq
updated 27 days ago by
Ram
37k • written 7.7 years ago by
cfarmeri
▴ 210
9
votes
12
replies
8.0k
views
Ensembl GTF format: isn't the tag "transcript_id" mandatory?
annotation
RNA-Seq
GTF
GFF
ensembl
updated 3 days ago by
Ram
37k • written 7.8 years ago by
Pfs
▴ 550
2
votes
14
replies
8.0k
views
Batch Effect normalization with Combat generates error
microarray
normalization
combat
updated 17 days ago by
Ram
37k • written 7.7 years ago by
madkitty
▴ 660
17
votes
23
replies
7.9k
views
13 follow
How To Assemble Chloroplast Genome?
genome
assembly
updated 5 days ago by
Ram
37k • written 10.8 years ago by
Biomonika (Noolean)
3.2k
32
votes
10
replies
7.8k
views
6 follow
Ucsc/Ensembl Bam Converter?
bam
ucsc
ensembl
reference
updated 27 days ago by
Ram
37k • written 11.6 years ago by
2184687-1231-83-
★ 5.0k
14
votes
19
replies
7.8k
views
How to get proteins from GFF file resulted from MAKER annotation
assembly
MAKER
genome
fasta
GFF3
updated 28 days ago by
Juke34
7.5k • written 4.0 years ago by
imda
▴ 10
11
votes
21
replies
7.8k
views
6 follow
Problem with qcovs in blast outfmt 6
outfmt
blast
qcovs
updated 13 days ago by
Ram
37k • written 8.2 years ago by
Bara'a
▴ 270
5
votes
7
replies
7.5k
views
[solved] Retrieve fasta from balst db using blastdbcmd: Error: gi|742519789: OID not found
software error
blast
updated just now by
Ram
37k • written 7.7 years ago by
dago
★ 2.7k
0
votes
8
replies
7.5k
views
cuffmerge error: IOError: [Errno 2] No such file or directory: '\xe2\x80\x93g'
cuffmerge
IOError
Errno2
linux-mint
updated 26 days ago by
Ram
37k • written 7.7 years ago by
pedereri
▴ 10
13
votes
4
replies
7.4k
views
Selection of a "suggestive" level of association in a GWAS study
association
statistics
GWAS
updated 2 days ago by
Ram
37k • written 7.7 years ago by
Vincent Laufer
★ 2.5k
1
vote
10
replies
7.3k
views
How to change fastq reads header for running Trinity on them?
trinity
RNA-Seq
ngs
Assembly
updated 2 days ago by
Ram
37k • written 7.8 years ago by
seta
★ 1.7k
8
votes
8
replies
7.3k
views
ANI calculation: alternatives to Jspecies
ani
jspecies
updated 4 days ago by
Ram
37k • written 7.7 years ago by
fhsantanna
▴ 600
3
votes
10
replies
7.1k
views
hmmindex: FATAL: failed to open HMM file Pfam-A.hmm for reading.
software-error
sequencing
Pfam
hmmer
updated 27 days ago by
Ram
37k • written 7.7 years ago by
dago
★ 2.7k
8
votes
15
replies
7.1k
views
How to perform multiple comparisons using edgeR?
RNA-Seq
edgeR
updated 2 days ago by
ryandward
• 0 • written 3.7 years ago by
silas008
▴ 150
8
votes
15
replies
7.0k
views
6 follow
WGCNA pearson or bicor? Also, should I adjust module correlation Pvalues by Bonferroni?
WGCNA
Network
pearson
bicor
updated 18 days ago by
rodd
▴ 180 • written 4.5 years ago by
jagoor93
▴ 20
24
votes
10
replies
6.8k
views
7 follow
Is Transfac Professional Worth The Price?
updated 11 days ago by
nta
• 0 • written 9.8 years ago by
Tky
★ 1.0k
0
votes
3
replies
6.7k
views
RNA-seq experiment validation by qPCR
RNA-Seq
updated 2 days ago by
Ram
37k • written 7.8 years ago by
Inbalor
▴ 20
2
votes
2
replies
6.7k
views
Software that allows tip label editing for phylogenetic trees?
Geneious
phylogenetics
updated 26 days ago by
Ram
37k • written 7.8 years ago by
confusedious
▴ 450
3
votes
11
replies
6.7k
views
6 follow
Extract vcf file header and save it in Key-Value csv
genome
SNP
next-gen-sequencing
updated 5 days ago by
Ram
37k • written 4.2 years ago by
tinyskinn
• 0
5
votes
5
replies
6.7k
views
filtering by POS in bcftools
software error
bcftools
updated 6 days ago by
jediknightchannel
• 0 • written 4.0 years ago by
4galaxy77
2.6k
2
votes
3
replies
6.7k
views
Multiple sequence alignment of sequenecs of different length
multiple-sequence-alignment
updated 2 days ago by
Ram
37k • written 7.7 years ago by
rosies
• 0
2
votes
7
replies
6.6k
views
Bowtie2 run out of memory
software-error
alignment
bowtie2
updated 2 days ago by
Ram
37k • written 7.7 years ago by
anon
▴ 50
7
votes
9
replies
6.6k
views
single- or pair-end small RNA seq for miRNAs?
RNA-Seq
updated 9 days ago by
mbansal
• 0 • written 7.7 years ago by
dario.veneziano
▴ 10
2
votes
1
reply
6.4k
views
gff to gbk
gene
updated 27 days ago by
Ram
37k • written 7.7 years ago by
marcioalbuquerquesilva
▴ 10
2
votes
5
replies
6.3k
views
Error with Trinity installation
trinity
updated 12 days ago by
Ram
37k • written 7.7 years ago by
Kurban
▴ 230
1,000 results • Page
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CircRNA extraction from bulk RNA seq datasets using CIRCexplorer2 with STAR alignment
Does Gene length corrected TMM [GeTMM] violate any assumptions of TMM normalization?
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You could omit the NA values : `pca <- prcomp(na.omit(t(exprs(GSE65820))))`
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I imagine you can filter on things like E.C. numbers and domain names using `bash`, `awk`, `R`, or some other code.
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Did you look in the header of the provided VCF to see if any information has been encoded there (e.g. command line/options used).
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That's exactly what I've done. However the dispersion is really high (primary samples) and the total number of samples seems really low to…
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If the library was made using tagmentation then you will see that pattern. Flag warnings on FastQC do not immediately indicate that the da…
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I suppose there are multiple? Queries via Hail are very likely run against a [Matrix Table][1], but the web application likely uses a diffe…
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