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1,000 results • Page
2 of 20
Sort: replies
Rank
Views
Votes
Replies
4
votes
20
replies
1.3k
views
How can I count aminoacid residues from a HUGE compressed fasta file?
sequence
3.4 years ago by
schlogl
▴ 150
5
votes
20
replies
3.3k
views
DiscoSnp Segmentation fault
snp
discosnp
updated 8 months ago by
Ram
39k • written 7.8 years ago by
Hans
▴ 130
6
votes
20
replies
5.6k
views
filling of missing genotype information in merged variant call vcf file
SNP
5.0 years ago by
princy149
▴ 80
8
votes
20
replies
2.3k
views
Why does cufflinks split this transcript?
RNA-Seq
cufflinks
assembly
5.4 years ago by
corend
▴ 70
9
votes
20
replies
3.4k
views
Solve SAM issues flagged by Picard's ValidateSamFile
Picard
SAM
updated 10 weeks ago by
Ram
39k • written 4.8 years ago by
marongiu.luigi
▴ 680
8
votes
20
replies
1.8k
views
Getting read depth for normal and tumour
R
WGS
vcf
4.2 years ago by
fi1d18
★ 4.2k
8
votes
20
replies
1.9k
views
Converting runpsipred Script to Work on Windows OS
psipred
windows
updated 12 months ago by
Ram
39k • written 4.9 years ago by
Bara'a
▴ 270
5
votes
20
replies
7.4k
views
How to plot ChIP-seq Density vs Distance from TSS using Homer annoted files
ChIP-Seq
homer
6.8 years ago by
varsha619
▴ 90
6
votes
19
replies
2.3k
views
Clustering for Single-cell RNA-seq Data
clustering
R
single-cell
3.9 years ago by
aloke205
▴ 40
0
votes
19
replies
1.1k
views
map fasts files
RNA-Seq
FASTQ
R
5.3 years ago by
Learner
▴ 260
4
votes
19
replies
2.5k
views
Use machine learning as classifier
R
rRNA
16S
18S
ITS
updated 5.8 years ago by
Biostar
20 • written 5.9 years ago by
cool.abbecker
▴ 30
0
votes
19
replies
1.1k
views
best blast strategy: read vs cluster?
alignment
blast
search
strategy
3.5 years ago by
marongiu.luigi
▴ 680
7
votes
19
replies
6.4k
views
[R] Microarray analysis interpreting logFC after makeContrasts
microarray
R
updated 16 months ago by
Ram
39k • written 8.6 years ago by
mheiser1
▴ 10
1
vote
19
replies
5.9k
views
Conda install package - different internals
R
software error
updated 3.8 years ago by
Biostar
20 • written 3.8 years ago by
lihe.liu
▴ 30
17
votes
19
replies
2.2k
views
Sorting sequences according header
software error
sequence
Assembly
next-gen
6.8 years ago by
Gian77
▴ 60
0
votes
19
replies
2.1k
views
error related to vcfstats
numpy
snp
vcf
vcfstats
22 months ago by
rheab1230
▴ 140
0
votes
19
replies
3.3k
views
Difficulty installing GATKtoolkit
GATK
Variant calling
SNPs
Indels
5.4 years ago by
jaqx008
▴ 110
10
votes
19
replies
2.6k
views
What is a difference between uniprot and 'nr. Non-redundant GenBank...'?
Genebank
blast
UniProt
updated 2.0 years ago by
GenoMax
129k • written 2.1 years ago by
matt
▴ 20
0
votes
19
replies
1.2k
views
scatterplot in R
microarray
expression
gene
updated 8 months ago by
Ram
39k • written 8 months ago by
bioinformatics
▴ 10
15
votes
19
replies
1.4k
views
trimmomaric command for a fasta file?
trimmomatic
updated 5.1 years ago by
Ram
39k • written 5.1 years ago by
Nadin.asal
• 0
18
votes
19
replies
1.7k
views
6 follow
Extremely important marker gene has many reads based on IGV viewer but no quantified reads
rna-seq
sequencing
igv
alignment
next-gen
updated 6 months ago by
Ram
39k • written 4.4 years ago by
rbkh09
• 0
3
votes
19
replies
4.9k
views
gatk-launch file missing
next-gen
sequencing
software error
updated 4.1 years ago by
finswimmer
16k • written 4.1 years ago by
sruthi
▴ 40
22
votes
19
replies
2.5k
views
targets of a list of miRNAs
miRNAs
RNA-Seq
DEanalysis
target-prediction
6.7 years ago by
fi1d18
★ 4.2k
0
votes
19
replies
8.3k
views
Skip orientation as there are not enough pairs by bwa mem
whole genome
bwa
paired end sequencing
4.0 years ago by
seta
★ 1.8k
6
votes
19
replies
1.3k
views
Fastq header modification
sequence
next-gen
updated 5.2 years ago by
Ram
39k • written 5.2 years ago by
Guillaume
• 0
7
votes
19
replies
2.4k
views
mapping script process sleeping on server.
alignment
updated 12 months ago by
Ram
39k • written 8.2 years ago by
lvogel
▴ 30
13
votes
19
replies
4.5k
views
bbmerge not joining paired-end reads
bbmerge
alignment
5.5 years ago by
bioplanet
▴ 60
9
votes
19
replies
1.7k
views
There are any way to use a script for feed emboss with fasta sequence?
sequence
3.4 years ago by
schlogl
▴ 150
5
votes
19
replies
1.3k
views
how I can come up with a permanent error
R
software error
6.1 years ago by
fi1d18
★ 4.2k
1
vote
19
replies
1.6k
views
High no feature counts in ht-seq counts
RNA-Seq
sequencing
4.5 years ago by
eozcan
▴ 10
2
votes
18
replies
5.3k
views
No differentially expressed genes using DESeq2
RNA-Seq
deseq2
6.6 years ago by
Sumit Paliwal
▴ 40
2
votes
18
replies
1.8k
views
I need help in this
gene
weblems
alignment
updated 10 months ago by
Ram
39k • written 7.4 years ago by
efosa15
• 0
16
votes
18
replies
4.1k
views
8 follow
Python Program to read .fasta file to .txt file
Python
updated 3.8 years ago by
Mensur Dlakic
★ 23k • written 3.8 years ago by
tikshyadav19
• 0
3
votes
18
replies
1.1k
views
6 follow
What sequencing/alignment artifact is this?
variants
mutect
sequencing
alignment
mitochondria
7 months ago by
lacb
▴ 120
3
votes
18
replies
2.1k
views
Help creating Deseq2 count matrix from separate files
or
Sample
matrix
updated 22 months ago by
Ram
39k • written 23 months ago by
Nai
▴ 50
7
votes
18
replies
4.1k
views
Fold change UP and Down in dplyr calculation
R
5.8 years ago by
1769mkc
★ 1.1k
2
votes
18
replies
1.9k
views
Bwa on multiple processor
np
mpirun
bwa
alignment
17 months ago by
shivangi.agarwal800
▴ 120
4
votes
18
replies
3.4k
views
Significance of reads mapping to Viruses - FusionCatcher
RNA-Seq
virus
reads
fusion
updated 10 months ago by
Ram
39k • written 7.5 years ago by
Joel TM
▴ 60
14
votes
18
replies
4.2k
views
GATK Haplotype Caller
next-gen
GATK
haplotype
caller
contigs
updated 6.4 years ago by
Biostar
20 • written 6.6 years ago by
plink_9857
▴ 50
7
votes
18
replies
7.7k
views
9 follow
Cuffmerge running error
RNA-Seq
updated 15 months ago by
Ram
39k • written 8.6 years ago by
hana
▴ 190
4
votes
18
replies
2.6k
views
Inline barcodes in the reverse reads
barcodes
6.6 years ago by
Picasa
▴ 640
5
votes
18
replies
5.3k
views
EnhancedVolcano plot error: Log2foldchange is not numeric!
R
EnhancedVolcano
3.5 years ago by
michelle.piquet
▴ 60
1
vote
18
replies
1.2k
views
Find tissues that are functionally related
tissue
functionally-related
gene-expression
updated 3.8 years ago by
Biostar
20 • written 3.8 years ago by
Natasha
▴ 40
0
votes
18
replies
1.0k
views
No gene name after annovar vcf file processing
vcf
annovar
3.6 years ago by
valerie
▴ 100
1
vote
18
replies
2.2k
views
Why big gaps when I use Entrez Eutils to download protein coding sequences.
entrez
eutils
6.8 years ago by
Tom
▴ 40
7
votes
18
replies
4.0k
views
Bowtie indexing of a fasta file that consists of a large amount of sequences
bowtie
alignment
genome
6.6 years ago by
valerie
▴ 100
4
votes
18
replies
12k
views
Alignment with BWA and SAMtools
BWA
SAM-file
SAMtools
updated 2.6 years ago by
Biostar
20 • written 4.8 years ago by
Shelle
▴ 30
0
votes
18
replies
1.3k
views
freebayes error variant calling
snp
2.8 years ago by
evelyn
▴ 220
20
votes
17
replies
5.2k
views
HiSeq 4000 PhiX screening and removal using bbduk
spikein
filtering
bbmap
bbduk
phix
5.8 years ago by
Anand Rao
▴ 560
0
votes
17
replies
1.1k
views
Transcripts with no read support
RNA-Seq
alignment
assembly
salmon
2.7 years ago by
Dunois
★ 2.3k
1,000 results • Page
2 of 20
Recent Votes
Answer: Perl. How to retrieve data until a keyword in GenBank?
Answer: Perl script running slow with big files
C: Bedtools problem : It looks as though you have less than 3 columns at line: 1.
A: Forward And Reverse Strand Conventions
Comment: hisat2 Error 137
Comment: NCBI API, Perl
Comment: Is hg38 on the multiz 30-way alignment inaccurate?
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Recent Replies
Comment: NCBI API, Perl
by
MirianT_NCBI
▴ 590
Hi, Following Genomax' suggestion, you can use NCBI Datasets. I used the IDs you posted to create a list. ``` LOC105370256 LOC105377806 LO…
Comment: How to quantification proteomics data
by
eqoa45
• 0
Hello, can I ask how did you manage the solution?
Comment: Perl. How to retrieve data until a keyword in GenBank?
by
Fungi-Beware!
▴ 10
Doing it this way outputs the info, but it doesn't preserve the paragraphs (all the info gets smashed into a single line). Is there a way …
Comment: Is hg38 on the multiz 30-way alignment inaccurate?
by
Daniel
▴ 30
I am referring to chr2.maf which I found here (last updated 2017): https://hgdownload.soe.ucsc.edu/goldenPath/hg38/multiz30way/maf/ PHAST …
Answer: Spatial transcriptomics without the h5 file
by
Arvin
• 0
If you still have the problem, I have stablished a code for you to read any spatial expression using gene expression and spatial coordinate…
Comment: Trying to edit VCF file
by
peavy
• 0
I'm aware. I manually typed each one but those 3 when I submitted. I actually made that mistake the first time around and only kept the 3 I…
Comment: Trying to edit VCF file
by
Pierre Lindenbaum
154k
option -S in bcftools view is for the samples you want to KEEP.
Comment: Get relationships and hierarchies for GO terms
by
Buffo
★ 2.2k
Something like [GO enrichment analysis][1]? [1]: http://geneontology.org/docs/go-enrichment-analysis/
Comment: Trying to edit VCF file
by
peavy
• 0
yes. They should be removed I imagine?
Comment: NCBI API, Perl
by
GenoMax
129k
NCBI `datasets` does not seem to want to work with those ID's but that may be my limited knowledge. NCBI support staff visits Biostars and …
Comment: Is hg38 on the multiz 30-way alignment inaccurate?
by
Maximilian Haeussler
★ 1.5k
Can you provide an example? Which MAF file are you referring to, on the UCSC and Ensembl side. I can imagine a dozen different things that …
Comment: Trying to edit VCF file
by
Pierre Lindenbaum
154k
are they present in Fall22C.txt ?
Comment: Trying to edit VCF file
by
peavy
• 0
Y Z and AA ideally wont be there or come up in the vcf file if I removed them proper so I'm wondering what the issue is in the initial code.
Comment: Trying to edit VCF file
by
Pierre Lindenbaum
154k
> I noticed that there was still columns for what I removed from the file. so, what should we see in your image ??
Comment: Trying to edit VCF file
by
peavy
• 0
![The last 3 columns are what I thhought I deleted ][1] [1]: /media/images/709ceea6-da38-47e3-b4ab-13727837
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