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1.0k
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Bedtools genomecov option to keep columns 4-6?
genomecov
bed
bedtools
updated 19 months ago by
zunyilim
• 0 • written 4.0 years ago by
rioualen
▴ 710
1
vote
1
reply
715
views
A regex to convert operon names to genes?
regex
r
gene
operon
updated 2.7 years ago by
Dunois
★ 2.5k • written 2.7 years ago by
rioualen
▴ 710
4
votes
7
replies
2.2k
views
can't run Aracne -- Java error
aracne
RNA-Seq
network
updated 2.9 years ago by
Federico Giorgi
▴ 740 • written 3.8 years ago by
rioualen
▴ 710
1
vote
7
replies
3.7k
views
Using the Homer suite with conda
homer
conda
bioconda
updated 3.2 years ago by
Biostar
20 • written 7.0 years ago by
rioualen
▴ 710
0
votes
3
replies
1.8k
views
Generate sequence alignment and heatmap for TF binding sites
alignment
ChIP-Seq
logo
heatmap
updated 4.2 years ago by
Asaf
10k • written 4.2 years ago by
rioualen
▴ 710
1
vote
10
replies
3.7k
views
Building sequence logo from uneven sequences
logo
alignment
fasta
ggseqlogo
weblogo
4.9 years ago by
rioualen
▴ 710
60
votes
12
replies
42k
views
10 follow
Get chromosome sizes from fasta file
genome
ucsc
updated 18 months ago by
jamesogilvie1
• 0 • written 8.3 years ago by
rioualen
▴ 710
3
votes
2
replies
2.9k
views
Download data from GEO/SRA using link
sra
fastq
geo
updated 5.1 years ago by
GenoMax
142k • written 5.1 years ago by
rioualen
▴ 710
1
vote
4
replies
2.0k
views
Bedtools window: getting feature from bedfile instead of GFF3 file
bedtools
window
updated 6.3 years ago by
Alex Reynolds
35k • written 6.3 years ago by
rioualen
▴ 710
3
votes
2
replies
2.3k
views
GC content biases in RNA-seq data of A.thaliana
RNA-Seq
GC
Athaliana
mapping
6.6 years ago by
rioualen
▴ 710
14
votes
8
replies
12k
views
Extract basic info from fastq files in an efficient way?
fastq
fastqc
updated 6.6 years ago by
h.mon
35k • written 6.6 years ago by
rioualen
▴ 710
10
votes
11
replies
4.0k
views
"Segmentation fault (core dumped)" using sickle for trimming, depending on options used
trimming
sickle
virtual-machine
6.7 years ago by
rioualen
▴ 710
7
votes
4
replies
3.8k
views
Merge bed files, keep the peak count
bedtools
bedops
ChIP-Seq
updated 6.9 years ago by
Biostar
20 • written 7.9 years ago by
rioualen
▴ 710
19
votes
16
replies
13k
views
6 follow
Differences between trimming tools: cutadapt, bbduk and sickle
sickle
cutadapt
trimming
bbduk
7.1 years ago by
rioualen
▴ 710
2
votes
2
replies
3.2k
views
How to remove adaptors if you don't know their names/sequences? (eg from public data)
adaptors
ngs
trimming
cutadapt
trimmomatic
updated 7.1 years ago by
ivivek_ngs
★ 5.2k • written 7.1 years ago by
rioualen
▴ 710
0
votes
0
replies
2.8k
views
Get fastq/sra from ArrayExpress and/or GEO programmatically for specific organism/experiment type
arrayexpress
fastq
sra
geo
7.4 years ago by
rioualen
▴ 710
1
vote
6
replies
2.3k
views
sra to fastq conversion - paired-end file won't split
fastq
sra
fastq-dump
sratoolkit
7.4 years ago by
rioualen
▴ 710
1
vote
4
replies
2.3k
views
Is there a simple way to get the max coverage of a bedgraph file in python?
python
bedgraph
updated 8.1 years ago by
Alex Reynolds
35k • written 8.1 years ago by
rioualen
▴ 710
7
votes
10
replies
3.6k
views
Looking for ways to download ChIP-seq datasets programmatically in a pipeline
GEO
ChIP-Seq
next-gen
updated 8.3 years ago by
matted
7.8k • written 8.3 years ago by
rioualen
▴ 710
2
votes
3
replies
2.0k
views
Get chromosome name from RefSeq format for C.elegans
ChIP-Seq
Refseq
8.8 years ago by
rioualen
▴ 710
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