Skip to content

Commit

Permalink
Update README.md
Browse files Browse the repository at this point in the history
  • Loading branch information
lakigigar authored Jul 15, 2019
1 parent fef827f commit ead5803
Showing 1 changed file with 5 additions and 6 deletions.
11 changes: 5 additions & 6 deletions README.md
Original file line number Diff line number Diff line change
Expand Up @@ -7,9 +7,9 @@ rapidly determining the compatibility of reads with targets, without the need
for alignment. On benchmarks with standard RNA-Seq data, __kallisto__ can
quantify 30 million human bulk RNA-seq reads in less than 3 minutes on a Mac desktop
computer using only the read sequences and a transcriptome index that
itself takes less than 10 minutes to build. Pseudoalignment of reads
itself takes than 10 minutes to build. Pseudoalignment of reads
preserves the key information needed for quantification, and __kallisto__
is therefore not only fast, but also as accurate than existing
is therefore not only fast, but also comparably accurate to other existing
quantification tools. In fact, because the pseudoalignment procedure is
robust to errors in the reads, in many benchmarks __kallisto__
significantly outperforms existing tools. The __kallisto__ algorithms are described in more detail in:
Expand All @@ -18,7 +18,7 @@ NL Bray, H Pimentel, P Melsted and L Pachter, [Near optimal probabilistic RNA-se

Scripts reproducing all the results of the paper are available [here](https://github.com/pachterlab/kallisto_paper_analysis).

__kallisto__ quantified RNA-Seq can be analyzed with [__sleuth__](https://github.com/pachterlab/sleuth/).
__kallisto__ quantified bulk RNA-Seq can be analyzed with [__sleuth__](https://github.com/pachterlab/sleuth/).

__kallisto__ can be used together with [__bustools__](https://bustools.github.io/) to pre-process single-cell RNA-seq data. See the [kallistobus.tools](https://www.kallistobus.tools/) website for instructions.

Expand All @@ -28,16 +28,15 @@ Please visit http://pachterlab.github.io/kallisto/manual.html for the manual.

## License

Please read the license before using kallisto. The license is distributed with __kallisto__ in the file `license.txt` also viewable [here](https://pachterlab.github.io/kallisto/download).
__kallisto__ is distributed under the BSD-2 license. The license is distributed with __kallisto__ in the file `license.txt`, which is also viewable [here](https://pachterlab.github.io/kallisto/download). Please read the license before using __kallisto__.

## Getting help

For help running __kallisto__, please post to the [kallisto-and-applications Google Group](https://groups.google.com/forum/#!forum/kallisto-and-applications).

## Reporting bugs

Please report bugs to the [Github issues
page](https://github.com/pachterlab/kallisto/issues)
Please report bugs to the [Github issues page](https://github.com/pachterlab/kallisto/issues)

## Development and pull requests

Expand Down

0 comments on commit ead5803

Please sign in to comment.