Update junctions-extract.md

Author: yang-yangfeng

docs/commands/junctions-extract.md

@@ -1,13 +1,13 @@
 ###Synopsis
-The `junctions extract` command can be used to extract exon-exon junctions from an RNAseq BAM file. The output is a BED file in the BED12 format. We have tested this command with alignments from TopHat and by comparing the exon-exon junctions with the `junctions.bed` file produced from TopHat.
+The `junctions extract` command can be used to extract exon-exon junctions from an RNAseq BAM/CRAM file. The output is a BED file in the BED12 format. We have tested this command with alignments from TopHat and by comparing the exon-exon junctions with the `junctions.bed` file produced from TopHat.
 
 ###Usage
 `regtools junctions extract [options] indexed_alignments.bam`
 
 ###Input
 | Input                  | Description |
 | ------                 | ----------- |
-| indexed_alignments.bam | Aligned RNAseq BAM which has been indexed for example with `samtools index`. We have tested this command with alignments from TopHat.|
+| indexed_alignments.bam | Aligned RNAseq BAM/CRAM which has been indexed for example with `samtools index`. We have tested this command with alignments from TopHat.|
 
 ###Options
 | Option  | Description |