Björn Grüning's Workflows

Galaxy workflow for the identification of ... (1)

• Download

This approach screens three proteins against a given genome sequence, leading to a genome position were all three genes are located nearby. As usual in Galaxy workflows every parameter, including the proximity distance, can be changed and additional steps can be easily added. For example additional filtering to refine the initial BLAST hits, or inclusion of a third query sequence.https://github.com/bgruening/galaxytools/tree/master/workflows/ncbi_blast_plus/find_three_genes_located_nearby

Created: 2015-03-17

Credits: Björn Grüning

Galaxy workflow for the identification of ... (1)

• Download

This approach screens two proteins against all nucleotide sequence from the NCBI nt database within hours on our cluster, leading to all organisms with an inter- esting gene structure for further investigation. As usual in Galaxy workflows every parameter, including the proximity distance, can be changed and additional steps can be easily added. For example additional filtering to refine the initial BLAST hits, or inclusion of a third query sequence.https://github.com/bgruening/galaxytools/tr...

Created: 2015-01-25

Credits: Björn Grüning

Compute and correct GC bias in NGS data (1)

• Download

Galaxy workflow based on deepTools which will compute and correct GC bias in your NGS data. For more information please see the deepTools wiki. This workflow is also available via the Galaxy Tool Shed.

Created: 2014-04-03

Credits: Björn Grüning

Remove "chr" from the beginning of genomic... (1)

• Download

Created: 2014-04-03

Credits: Björn Grüning

Add "chr" to the first column of a 6 colum... (1)

• Download

Created: 2014-04-03

Credits: Björn Grüning

Heatmap of read coverages (single BAM file) (1)

• Download

Created: 2014-04-03

Credits: Björn Grüning

Heatmap of read coverages (1)

• Download

Created: 2014-04-03

Credits: Björn Grüning

Clustered heatmap of signals around the TSSs (1)

• Download

Galaxy workflow based on deepTools which creates a clustered heatmap of signals around the TSS. One bigwig file is needed as input with the signal and an annotation file with your TSS regions. The output will be a heatmap. You can create such a bigwig file with the bamCorrelate toolFor more information please see the deepTools wiki. This workflow is also available via the Galaxy Tool Shed.

Created: 2014-04-03 | Last updated: 2014-04-03

Credits: Björn Grüning